RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780673|ref|YP_003065086.1| pyruvate dehydrogenase subunit
beta [Candidatus Liberibacter asiaticus str. psy62]
         (467 letters)



>gnl|CDD|183363 PRK11892, PRK11892, pyruvate dehydrogenase subunit beta;
           Provisional.
          Length = 464

 Score =  874 bits (2261), Expect = 0.0
 Identities = 323/469 (68%), Positives = 375/469 (79%), Gaps = 12/469 (2%)

Query: 1   MPILVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKIL 60
           M I + MP+LSPTM EG +AKW K EGD +K GD+I E+ETDKA MEVE++DEG LGKIL
Sbjct: 1   MAIEILMPALSPTMEEGTLAKWLKKEGDKVKSGDVIAEIETDKATMEVEAVDEGTLGKIL 60

Query: 61  CPNGTKNVKVNTPIAAILQEGETALDIDKMLLEKPDVAISPSSKNTTLVFSNEDNDKVDH 120
            P GT+ VKVNTPIA +L+EGE+A D         + A +  +       +     K   
Sbjct: 61  VPEGTEGVKVNTPIAVLLEEGESASDAGAAPAAAAEAAAAAPA-----AAAAAAAKKAAP 115

Query: 121 QKSKNDIQDSSFAHAP-------TSSITVREALRDAIAEEMRRDKDVFIMGEEVAEYQGA 173
             +      +  A  P         ++TVREALRDA+AEEMRRD+DVF+MGEEVAEYQGA
Sbjct: 116 APAAPAAPAAEVAADPDIPAGTEMVTMTVREALRDAMAEEMRRDEDVFVMGEEVAEYQGA 175

Query: 174 YKVTQGLLQEFGCERVIDTPITEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINS 233
           YKVTQGLLQEFG  RVIDTPITEHGFAGIG+GA+FAGLKPIVEFMTFNFAMQAIDQIINS
Sbjct: 176 YKVTQGLLQEFGARRVIDTPITEHGFAGIGVGAAFAGLKPIVEFMTFNFAMQAIDQIINS 235

Query: 234 AAKTRYMSGGQITTSIVFRGPNGAAARVAAQHSQCYAAWYSHVPGLKVVIPYTASDAKGL 293
           AAKT YMSGGQ+   IVFRGPNGAAARVAAQHSQ YAAWYSH+PGLKVV PY+A+DAKGL
Sbjct: 236 AAKTLYMSGGQMGCPIVFRGPNGAAARVAAQHSQDYAAWYSHIPGLKVVAPYSAADAKGL 295

Query: 294 LKAAIRDPNPVIFLENEILYGSSFEVPMVDDLVIPIGRARIHRQGSDVTIISFGIGMTYA 353
           LKAAIRDPNPVIFLENEILYG SF+VP +DD V+PIG+ARIHR+G DVTI+SF IGMTYA
Sbjct: 296 LKAAIRDPNPVIFLENEILYGQSFDVPKLDDFVLPIGKARIHREGKDVTIVSFSIGMTYA 355

Query: 354 TKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEEGYPQSSVGSTIANQV 413
            KAA EL K GIDAE+IDLRTIRPMD +TI ESVKKT RLVTVEEG+PQS VG+ IA +V
Sbjct: 356 LKAAEELAKEGIDAEVIDLRTIRPMDTETIVESVKKTNRLVTVEEGWPQSGVGAEIAARV 415

Query: 414 QRKVFDYLDAPILTITGRDVPMPYAANLEKLALPNVDEIIESVESICYK 462
             + FDYLDAP+L +TG+DVPMPYAANLEKLALP+V E++E+V+++CY+
Sbjct: 416 MEQAFDYLDAPVLRVTGKDVPMPYAANLEKLALPSVAEVVEAVKAVCYR 464


>gnl|CDD|169719 PRK09212, PRK09212, pyruvate dehydrogenase subunit beta; Validated.
          Length = 327

 Score =  564 bits (1456), Expect = e-161
 Identities = 231/326 (70%), Positives = 275/326 (84%), Gaps = 1/326 (0%)

Query: 139 SITVREALRDAIAEEMRRDKDVFIMGEEVAEYQGAYKVTQGLLQEFGCERVIDTPITEHG 198
            +TVREALRDA+ EEM RD  VF+MGEEV EYQGAYKVTQGLL++FG +RVIDTPITEHG
Sbjct: 3   QLTVREALRDAMQEEMERDPKVFLMGEEVGEYQGAYKVTQGLLEQFGPKRVIDTPITEHG 62

Query: 199 FAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTRYMSGGQITTSIVFRGPNGAA 258
           FAG+ +GA+FAGL+PIVEFMTFNF+MQAIDQI+NSAAKT YMSGGQ+   IVFRGPNGAA
Sbjct: 63  FAGLAVGAAFAGLRPIVEFMTFNFSMQAIDQIVNSAAKTNYMSGGQLKCPIVFRGPNGAA 122

Query: 259 ARVAAQHSQCYAAWYSHVPGLKVVIPYTASDAKGLLKAAIRDPNPVIFLENEILYGSSFE 318
           ARVAAQHSQCYAAWYSH+PGLKVV PY A+D KGLLK AIRDPNPVIFLENEILYG S E
Sbjct: 123 ARVAAQHSQCYAAWYSHIPGLKVVAPYFAADCKGLLKTAIRDPNPVIFLENEILYGHSHE 182

Query: 319 VPMVDDLVIPIGRARIHRQGSDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTIRPM 378
           VP  ++  IPIG+A I R+GSDVTI++F I +  A +AA  LEK GI  E+IDLRT+RP+
Sbjct: 183 VPE-EEESIPIGKAAILREGSDVTIVTFSIQVKLALEAAELLEKEGISVEVIDLRTLRPL 241

Query: 379 DWQTIFESVKKTGRLVTVEEGYPQSSVGSTIANQVQRKVFDYLDAPILTITGRDVPMPYA 438
           D +TI ESVKKT RLV VEEG+P + VG+ IA  + ++ FDYLDAP+  +TG+DVP+PYA
Sbjct: 242 DTETIIESVKKTNRLVVVEEGWPFAGVGAEIAALIMKEAFDYLDAPVERVTGKDVPLPYA 301

Query: 439 ANLEKLALPNVDEIIESVESICYKRK 464
           ANLEKLALP+ ++IIE+V+ +CY+  
Sbjct: 302 ANLEKLALPSEEDIIEAVKKVCYRSI 327


>gnl|CDD|178287 PLN02683, PLN02683, pyruvate dehydrogenase E1 component subunit
           beta.
          Length = 356

 Score =  523 bits (1349), Expect = e-149
 Identities = 213/335 (63%), Positives = 261/335 (77%), Gaps = 3/335 (0%)

Query: 135 APTSSITVREALRDAIAEEMRRDKDVFIMGEEVAEYQGAYKVTQGLLQEFGCERVIDTPI 194
           +    +TVR+AL  A+ EEM  D  VFIMGEEV EYQGAYK+T+GLLQ++G +RV+DTPI
Sbjct: 22  SAAKEMTVRDALNSALDEEMSADPKVFIMGEEVGEYQGAYKITKGLLQKYGPDRVLDTPI 81

Query: 195 TEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTRYMSGGQITTSIVFRGP 254
           TE GF GIG+GA++AGLKP+VEFMTFNF+MQAID IINSAAKT YMS GQI+  IVFRGP
Sbjct: 82  TEAGFTGIGVGAAYAGLKPVVEFMTFNFSMQAIDHIINSAAKTNYMSAGQISVPIVFRGP 141

Query: 255 NGAAARVAAQHSQCYAAWYSHVPGLKVVIPYTASDAKGLLKAAIRDPNPVIFLENEILYG 314
           NGAAA V AQHSQC+AAWYS VPGLKV+ PY++ DA+GLLKAAIRDP+PV+FLENE+LYG
Sbjct: 142 NGAAAGVGAQHSQCFAAWYSSVPGLKVLAPYSSEDARGLLKAAIRDPDPVVFLENELLYG 201

Query: 315 SSFEVP---MVDDLVIPIGRARIHRQGSDVTIISFGIGMTYATKAAIELEKNGIDAELID 371
            SF V    +    V+PIG+A+I R+G DVTI++F   + YA KAA  L K GI AE+I+
Sbjct: 202 ESFPVSAEVLDSSFVLPIGKAKIEREGKDVTIVAFSKMVGYALKAAEILAKEGISAEVIN 261

Query: 372 LRTIRPMDWQTIFESVKKTGRLVTVEEGYPQSSVGSTIANQVQRKVFDYLDAPILTITGR 431
           LR+IRP+D  TI  SV+KT RLVTVEEG+PQ  VG+ I   V  + FDYLDAP+  I G 
Sbjct: 262 LRSIRPLDRDTINASVRKTNRLVTVEEGWPQHGVGAEICASVVEESFDYLDAPVERIAGA 321

Query: 432 DVPMPYAANLEKLALPNVDEIIESVESICYKRKAK 466
           DVPMPYAANLE+LALP V++I+ + +  CY+    
Sbjct: 322 DVPMPYAANLERLALPQVEDIVRAAKRACYRSVPM 356


>gnl|CDD|185502 PTZ00182, PTZ00182, 3-methyl-2-oxobutanate dehydrogenase;
           Provisional.
          Length = 355

 Score =  508 bits (1311), Expect = e-145
 Identities = 171/325 (52%), Positives = 221/325 (68%)

Query: 136 PTSSITVREALRDAIAEEMRRDKDVFIMGEEVAEYQGAYKVTQGLLQEFGCERVIDTPIT 195
            T  + VREA+  A+ EE+ RD  VF++GE+VA+Y G YK T+GLL ++G +RV DTPIT
Sbjct: 31  ATVKMNVREAINSALDEELARDPKVFVLGEDVAQYGGVYKCTKGLLDKYGPDRVFDTPIT 90

Query: 196 EHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTRYMSGGQITTSIVFRGPN 255
           E GFAG  IGA+  GL+PI EFM  +F   A DQI+N AAK RYMSGGQ    IV RGPN
Sbjct: 91  EQGFAGFAIGAAMNGLRPIAEFMFADFIFPAFDQIVNEAAKYRYMSGGQFDCPIVIRGPN 150

Query: 256 GAAARVAAQHSQCYAAWYSHVPGLKVVIPYTASDAKGLLKAAIRDPNPVIFLENEILYGS 315
           GA     A HSQ + A+++HVPGLKVV P    DAKGLLKAAIRDPNPV+F E ++LY  
Sbjct: 151 GAVGHGGAYHSQSFEAYFAHVPGLKVVAPSDPEDAKGLLKAAIRDPNPVVFFEPKLLYRE 210

Query: 316 SFEVPMVDDLVIPIGRARIHRQGSDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTI 375
           S EV    D  +P+G+A++ R+G DVTI+ +G  +  A KAA EL K GI  E+IDLR++
Sbjct: 211 SVEVVPEADYTLPLGKAKVVREGKDVTIVGYGSQVHVALKAAEELAKEGISCEVIDLRSL 270

Query: 376 RPMDWQTIFESVKKTGRLVTVEEGYPQSSVGSTIANQVQRKVFDYLDAPILTITGRDVPM 435
           RP D +TI +SVKKTGR V V E  P   +G+ IA Q+    F YL+API  + G D P 
Sbjct: 271 RPWDRETIVKSVKKTGRCVIVHEAPPTCGIGAEIAAQIMEDCFLYLEAPIKRVCGADTPF 330

Query: 436 PYAANLEKLALPNVDEIIESVESIC 460
           PYA NLE   LP+ ++++E+ + + 
Sbjct: 331 PYAKNLEPAYLPDKEKVVEAAKRVL 355


>gnl|CDD|129094 smart00861, Transket_pyr, Transketolase, pyrimidine binding domain.
            Transketolase (TK) catalyzes the reversible transfer of
           a two-carbon ketol unit from xylulose 5-phosphate to an
           aldose receptor, such as ribose 5-phosphate, to form
           sedoheptulose 7-phosphate and glyceraldehyde 3-
           phosphate. This enzyme, together with transaldolase,
           provides a link between the glycolytic and
           pentose-phosphate pathways. TK requires thiamine
           pyrophosphate as a cofactor. In most sources where TK
           has been purified, it is a homodimer of approximately 70
           Kd subunits. TK sequences from a variety of eukaryotic
           and prokaryotic sources show that the enzyme has been
           evolutionarily conserved. In the peroxisomes of
           methylotrophic yeast Hansenula polymorpha, there is a
           highly related enzyme, dihydroxy-acetone synthase (DHAS)
           (also known as formaldehyde transketolase), which
           exhibits a very unusual specificity by including
           formaldehyde amongst its substrates.
          Length = 168

 Score =  142 bits (360), Expect = 2e-34
 Identities = 65/180 (36%), Positives = 87/180 (48%), Gaps = 23/180 (12%)

Query: 141 TVREALRDAIAEEMRRD-KDVFIMGEEVA-----EYQGAYKVTQGLLQEFGCERVIDTPI 194
             R+A  +A+AE   RD + V + G +V      +  G +  T+GL    G  RVIDT I
Sbjct: 1   ATRKAFGEALAELAERDPERVVVSGADVGGSTGLDRGGVFPDTKGL----GPGRVIDTGI 56

Query: 195 TEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTRYMSGGQITTSIVFRGP 254
            E    G   G + AGL+P+V    F F  +A DQI +  A  R          +V R  
Sbjct: 57  AEQAMVGFAAGLALAGLRPVVAIF-FTFFDRAKDQIRSDGAMGR--------VPVVVRHD 107

Query: 255 NGAAARV--AAQHSQCYAAWYSHVPGLKVVIPYTASDAKGLLKAAIRDPN--PVIFLENE 310
           +G          HSQ   A    +PGLKVV P   ++AKGLL+AAIR  +  PVI LE +
Sbjct: 108 SGGGVGEDGPTHHSQEDEALLRAIPGLKVVAPSDPAEAKGLLRAAIRRDDGPPVIRLERK 167


>gnl|CDD|162311 TIGR01349, PDHac_trf_mito, pyruvate dehydrogenase complex
           dihydrolipoamide acetyltransferase, long form.  This
           model represents one of several closely related clades
           of the dihydrolipoamide acetyltransferase subunit of the
           pyruvate dehydrogenase complex. It includes sequences
           from mitochondria and from alpha and beta branches of
           the proteobacteria, as well as from some other bacteria.
           Sequences from Gram-positive bacteria are not included.
           The non-enzymatic homolog protein X, which serves as an
           E3 component binding protein, falls within the clade
           phylogenetically but is rejected by its low score.
          Length = 435

 Score =  127 bits (321), Expect = 5e-30
 Identities = 55/102 (53%), Positives = 68/102 (66%), Gaps = 1/102 (0%)

Query: 4   LVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPN 63
            +TMP+LSPTMT GN+AKW K EGD +  GD+I E+ETDKA ME E+++EG L KIL P 
Sbjct: 1   KITMPALSPTMTTGNLAKWLKKEGDKVNPGDVIAEIETDKATMEFEAVEEGYLAKILVPE 60

Query: 64  GTKNVKVNTPIAAILQEGETALDIDKML-LEKPDVAISPSSK 104
           GTK+V VN PIA +++E E   D  K   LE    A  PS  
Sbjct: 61  GTKDVPVNKPIAVLVEEKEDVADAFKNYKLESSASAPKPSEI 102


>gnl|CDD|183339 PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase
          subunit E2; Reviewed.
          Length = 411

 Score =  117 bits (296), Expect = 6e-27
 Identities = 35/84 (41%), Positives = 45/84 (53%), Gaps = 1/84 (1%)

Query: 1  MPILVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKIL 60
          M     MP L   MTEG I +W    GD +K+G  + EVETDKA +E+ S   G + K+L
Sbjct: 1  MMFEFKMPDLGEGMTEGEIVEWLVKVGDTVKEGQPLAEVETDKATVEIPSPVAGTVAKLL 60

Query: 61 CPNGTKNVKVNTPIAAILQEGETA 84
             G   V V + IA I +EGE  
Sbjct: 61 VEEGDV-VPVGSVIAVIEEEGEAE 83


>gnl|CDD|178345 PLN02744, PLN02744, dihydrolipoyllysine-residue acetyltransferase
           component of pyruvate dehydrogenase complex.
          Length = 539

 Score =  104 bits (262), Expect = 3e-23
 Identities = 48/95 (50%), Positives = 64/95 (67%), Gaps = 3/95 (3%)

Query: 7   MPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTK 66
           MPSLSPTMTEGNIA+W K EGD +  G+++ EVETDKA +E+E ++EG L KI+  +G K
Sbjct: 117 MPSLSPTMTEGNIARWLKKEGDKVSPGEVLCEVETDKATVEMECMEEGYLAKIVKGDGAK 176

Query: 67  NVKVNTPIAAILQEGETALDIDKMLLEKPDVAISP 101
            +KV   IA  ++E E   DI K    KP  + +P
Sbjct: 177 EIKVGEVIAITVEEEE---DIGKFKDYKPSSSAAP 208


>gnl|CDD|180086 PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase;
           Provisional.
          Length = 580

 Score = 81.7 bits (203), Expect = 4e-16
 Identities = 71/263 (26%), Positives = 116/263 (44%), Gaps = 49/263 (18%)

Query: 182 QEFGCERVIDTPITE-HG--FAGIGIGASFAGLKPIVE-FMTFNFAMQ-AIDQIINSAAK 236
           + F  +R  D  I E H   FA    G +  GLKP+V  + TF   +Q A DQ+I+  A 
Sbjct: 317 KRFP-DRYFDVGIAEQHAVTFAA---GLATEGLKPVVAIYSTF---LQRAYDQVIHDVAL 369

Query: 237 TRYMSGGQITTSIVF---R----GPNGAAARVAAQHSQCY-AAWYSHVPGLKVVIPYTAS 288
                       + F   R    G +G        H   +  ++   +P + ++ P   +
Sbjct: 370 QN--------LPVTFAIDRAGLVGADGPT------HQGAFDLSYLRCIPNMVIMAPSDEN 415

Query: 289 DAKGLLKAAIR-DPNPVIFLENEILY--GSSFEVPMVDDLVIPIGRARIHRQGSDVTIIS 345
           + + +L  A+  D  P+      I Y  G+   V + +   +PIG+  + R+G DV I++
Sbjct: 416 ELRQMLYTALAYDDGPIA-----IRYPRGNGVGVELPELEPLPIGKGEVLREGEDVAILA 470

Query: 346 FGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEEGYPQSSV 405
           FG  +  A KAA  L      A ++D R ++P+D + + E   K   +VTVEEG      
Sbjct: 471 FGTMLAEALKAAERLA----SATVVDARFVKPLDEELLLELAAKHDLVVTVEEGAIMGGF 526

Query: 406 GSTIANQVQRKVFDYLDAPILTI 428
           GS +   +       LD P+L +
Sbjct: 527 GSAVLEFLADH---GLDVPVLNL 546


>gnl|CDD|129308 TIGR00204, dxs, 1-deoxy-D-xylulose-5-phosphate synthase.  DXP
           synthase is a thiamine diphosphate-dependent enzyme
           related to transketolase and the pyruvate dehydrogenase
           E1-beta subunit. By an acyloin condensation of pyruvate
           with glyceraldehyde 3-phosphate, it produces
           1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine
           diphosphate (TPP), pyridoxal phosphate, and the
           isoprenoid building block isopentenyl diphosphate (IPP).
          Length = 617

 Score = 79.4 bits (196), Expect = 2e-15
 Identities = 54/237 (22%), Positives = 99/237 (41%), Gaps = 19/237 (8%)

Query: 179 GLLQEFGCERVIDTPITEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTR 238
              ++F  +R  D  I E        G +  G KP V   +  F  +A DQ+++      
Sbjct: 345 KFSRKFP-DRYFDVAIAEQHAVTFAAGMAIEGYKPFVAIYS-TFLQRAYDQVVHDVC--- 399

Query: 239 YMSGGQITTSIVFRGPNGAAARVA--AQHSQCY-AAWYSHVPGLKVVIPYTASDAKGLLK 295
                 I    V    + A    A    H   +  ++   +P + ++ P   ++ + +L 
Sbjct: 400 ------IQKLPVLFAIDRAGIVGADGETHQGAFDISYLRCIPNMVIMAPSDENELRQMLY 453

Query: 296 AAIR-DPNPVIFLENEILYGSSFEVPMVDDL-VIPIGRARIHRQGSDVTIISFGIGMTYA 353
                D  P+         G++  V +  +   +PIG++ + R+G  + I+ FG  +  A
Sbjct: 454 TGYHYDDGPIAV---RYPRGNAVGVELTPEPEKLPIGKSEVLRKGEKILILGFGTLVPEA 510

Query: 354 TKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEEGYPQSSVGSTIA 410
            + A  L + GI+A ++D R ++P+D + I E      +LVTVEE       GS + 
Sbjct: 511 LEVAESLNEKGIEATVVDARFVKPLDEELILEIAASHEKLVTVEENAIMGGAGSAVL 567


>gnl|CDD|184875 PRK14875, PRK14875, acetoin dehydrogenase E2 subunit
          dihydrolipoyllysine-residue acetyltransferase;
          Provisional.
          Length = 371

 Score = 75.4 bits (186), Expect = 3e-14
 Identities = 29/84 (34%), Positives = 45/84 (53%), Gaps = 1/84 (1%)

Query: 5  VTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
          +TMP    +MTEG +A W   EGD +++GD + +VETDK   EVE+   G L + +   G
Sbjct: 5  ITMPKWGLSMTEGKVAGWLVQEGDEVEKGDELLDVETDKITNEVEAPAAGTLRRQVAQEG 64

Query: 65 TKNVKVNTPIAAILQEGETALDID 88
             + V   +A +     +  +ID
Sbjct: 65 E-TLPVGALLAVVADAEVSDAEID 87


>gnl|CDD|162309 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex
          dihydrolipoamide succinyltransferase (E2 component).
          dihydrolipoamide acetyltransferase. The seed for this
          model includes mitochondrial and Gram-negative
          bacterial forms. Mycobacterial candidates are highly
          derived, differ in having and extra copy of the
          lipoyl-binding domain at the N-terminus. They score
          below the trusted cutoff, but above the noise cutoff
          and above all examples of dihydrolipoamide
          acetyltransferase.
          Length = 403

 Score = 67.1 bits (164), Expect = 8e-12
 Identities = 34/82 (41%), Positives = 52/82 (63%), Gaps = 2/82 (2%)

Query: 3  ILVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCP 62
          I + +P L+ ++TEG +A+W K  GD +K+ + I E+ETDK V+EV S  +G+L +IL  
Sbjct: 1  IEIKVPELAESITEGTVAEWHKKVGDTVKRDENIVEIETDKVVLEVPSPADGVLQEILFK 60

Query: 63 NGTKNVKVNTPIAAILQEGETA 84
           G   V+    + AIL+EG  A
Sbjct: 61 EGDT-VESGQVL-AILEEGNDA 80


>gnl|CDD|180214 PRK05704, PRK05704, dihydrolipoamide succinyltransferase;
          Validated.
          Length = 407

 Score = 67.2 bits (165), Expect = 1e-11
 Identities = 31/84 (36%), Positives = 48/84 (57%), Gaps = 2/84 (2%)

Query: 1  MPILVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKIL 60
          M + + +P+L  ++TE  IA W K  GD +K+ +++ E+ETDK V+EV +   G+L +IL
Sbjct: 1  MMVEIKVPTLPESVTEATIATWHKKPGDAVKRDEVLVEIETDKVVLEVPAPAAGVLSEIL 60

Query: 61 CPNGTKNVKVNTPIAAILQEGETA 84
             G   V V   +  I  EG  A
Sbjct: 61 AEEGD-TVTVGQVLGRI-DEGAAA 82


>gnl|CDD|183601 PRK12571, PRK12571, 1-deoxy-D-xylulose-5-phosphate synthase;
           Provisional.
          Length = 641

 Score = 61.7 bits (150), Expect = 4e-10
 Identities = 79/344 (22%), Positives = 138/344 (40%), Gaps = 37/344 (10%)

Query: 113 EDNDKVDHQKSKNDIQDSSFAHAPTSSITVREALRDAIAEEMRRDKDVFIMGEEVAEYQG 172
            D DK  H   K D+       +  S+ +      + + +E   D D  I+    A   G
Sbjct: 293 ADEDKY-HAVGKFDVVTGLQKKSAPSAPSYTSVFGEELTKEAAEDSD--IVAITAAMPLG 349

Query: 173 AYKVTQGLLQEFGCERVIDTPITEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIIN 232
                   LQ+    RV D  I E        G + AGLKP     +  F  +  DQ+++
Sbjct: 350 ---TGLDKLQKRFPNRVFDVGIAEQHAVTFAAGLAAAGLKPFCAVYS-TFLQRGYDQLLH 405

Query: 233 SAA----KTRYM---SGGQITTSIVFRGPNGAAARVAAQHSQCY-AAWYSHVPGLKVVIP 284
             A      R++   +G          G +GA       H+  +  A+ +++P + V+ P
Sbjct: 406 DVALQNLPVRFVLDRAG--------LVGADGAT------HAGAFDLAFLTNLPNMTVMAP 451

Query: 285 YTASDAKGLLKAAI---RDPNPVIFLENEILYGSSFEVPMVDDLVIPIGRARIHRQGSDV 341
              ++ + +L+ A      P  V F   E   G   E+P     ++ IG+ R+ R+G DV
Sbjct: 452 RDEAELRHMLRTAAAHDDGPIAVRFPRGE---GVGVEIPAEGT-ILGIGKGRVPREGPDV 507

Query: 342 TIISFGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEEGYP 401
            I+S G  +     AA  LE  GI   + D R ++P+D + + + + +   +V VEE   
Sbjct: 508 AILSVGAHLHECLDAADLLEAEGISVTVADPRFVKPLD-EALTDLLVRHHIVVIVEEQGA 566

Query: 402 QSSVGSTIANQVQRKVFDYLDAPILTITGRDVPMPYAANLEKLA 445
               G+ + + +           + T+   D  + +A+  E  A
Sbjct: 567 MGGFGAHVLHHLADTGLLDGGLKLRTLGLPDRFIDHASREEMYA 610


>gnl|CDD|183338 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
          Length = 547

 Score = 57.5 bits (140), Expect = 7e-09
 Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 1/63 (1%)

Query: 15  TEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTKNVKVNTPI 74
           TE  + +W    GD +++   +  VETDKA ME+ S   G++ +I    G K V V + +
Sbjct: 131 TEVEVIEWLVKVGDTVEEDQSLITVETDKATMEIPSPVAGVVKEIKVKVGDK-VSVGSLL 189

Query: 75  AAI 77
             I
Sbjct: 190 VVI 192



 Score = 55.2 bits (134), Expect = 4e-08
 Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 1/70 (1%)

Query: 15 TEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTKNVKVNTPI 74
           E  + +W   EGD +++   +  VETDKA ME+ S   G++ +I    G   V V   +
Sbjct: 14 VEVEVIEWLVKEGDTVEEDQPLVTVETDKATMEIPSPAAGVVKEIKVKVGDT-VSVGGLL 72

Query: 75 AAILQEGETA 84
          A I   G  A
Sbjct: 73 AVIEAAGAAA 82


>gnl|CDD|177870 PLN02225, PLN02225, 1-deoxy-D-xylulose-5-phosphate synthase.
          Length = 701

 Score = 57.0 bits (137), Expect = 9e-09
 Identities = 64/264 (24%), Positives = 112/264 (42%), Gaps = 22/264 (8%)

Query: 141 TVREALRDAIAEEMRRDKDVFIMGEEVAEYQGAYKVTQGLLQEFGCERVIDTPITEHGFA 200
           T  +   +A+  E  +D+D+ ++         A  +T    QE   +R  +  + E    
Sbjct: 382 TYSDCFVEALVMEAEKDRDIVVV--HAGMEMDASLIT---FQERFPDRFFNVGMAEQHAV 436

Query: 201 GIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTRYMSGGQITTSIVFRGPNGAAAR 260
               G S  GLKP    +   F  +A DQ+++   + R      IT++ +  G +G    
Sbjct: 437 TFSAGLSSGGLKPFC-IIPSAFLQRAYDQVVHDVDRQRKAVRFVITSAGLV-GSDGPV-- 492

Query: 261 VAAQHSQCYA---AWYSHVPGLKVVIPYTASDAKGLL-KAAIRDPNPVIF-LENEILYGS 315
                 QC A   A+ S +P +  + P    +   ++  AA     PV F      +   
Sbjct: 493 ------QCGAFDIAFMSSLPNMIAMAPADEDELVNMVATAAYVTDRPVCFRFPRGSIVNM 546

Query: 316 SFEVPMVDDLVIPIGRARIHRQGSDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTI 375
           ++ VP    L I IGR R+  +G DV ++ +G  +     A   L K G++  + D R  
Sbjct: 547 NYLVPT--GLPIEIGRGRVLVEGQDVALLGYGAMVQNCLHAHSLLSKLGLNVTVADARFC 604

Query: 376 RPMDWQTIFESVKKTGRLVTVEEG 399
           +P+D + + +  +    L+TVEEG
Sbjct: 605 KPLDIKLVRDLCQNHKFLITVEEG 628


>gnl|CDD|185477 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
           Provisional.
          Length = 418

 Score = 52.8 bits (127), Expect = 2e-07
 Identities = 27/135 (20%), Positives = 55/135 (40%), Gaps = 5/135 (3%)

Query: 5   VTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
           + +P++  +++EG + +WKK  GD +K+ ++I  +ETDK  +++ +   G++ KI    G
Sbjct: 47  IKVPTMGDSISEGTVVEWKKKVGDYVKEDEVICIIETDKVSVDIRAPASGVITKIFAEEG 106

Query: 65  TKNVKVNTPIAAILQEGETALDIDKMLLEKPDVAISPSSKNTTLVFSNEDNDKVDHQKSK 124
              V+V  P++ I   G                A +  +       +    +     K  
Sbjct: 107 D-TVEVGAPLSEIDTGGAPPAAA----PAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPT 161

Query: 125 NDIQDSSFAHAPTSS 139
                     AP + 
Sbjct: 162 PPAAAKPPEPAPAAK 176


>gnl|CDD|131973 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2
          component, dihydrolipoamide succinyltransferase.  This
          model represents an Actinobacterial clade of E2 enzyme,
          a component of the 2-oxoglutarate dehydrogenase complex
          involved in the TCA cycle. These proteins have multiple
          domains including the catalytic domain (pfam00198), one
          or two biotin domains (pfam00364) and an E3-component
          binding domain (pfam02817).
          Length = 590

 Score = 51.3 bits (122), Expect = 5e-07
 Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 1/82 (1%)

Query: 1  MPILVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKIL 60
          M   V MP+L  ++TEG I +W K EGD ++  + + EV TDK   E+ S   G++ +I 
Sbjct: 1  MAFSVEMPALGESVTEGTITQWLKAEGDTVELDEPLLEVSTDKVDTEIPSPAAGVILEIK 60

Query: 61 CPNGTKNVKVNTPIAAILQEGE 82
                 V +   IA I + GE
Sbjct: 61 AEE-DDTVDIGGEIAIIGEAGE 81



 Score = 44.4 bits (104), Expect = 6e-05
 Identities = 36/137 (26%), Positives = 56/137 (40%), Gaps = 1/137 (0%)

Query: 5   VTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
           + MP L  ++TEG I +W K  GD I+  + I EV TDK   E+ S   G + +IL    
Sbjct: 138 IEMPELGESVTEGTITQWLKAVGDKIEVDEPILEVSTDKVDTEIPSPVAGTILEILA-EE 196

Query: 65  TKNVKVNTPIAAILQEGETALDIDKMLLEKPDVAISPSSKNTTLVFSNEDNDKVDHQKSK 124
              V V   IA I   G  A +  K   E    A +   +            + D  +++
Sbjct: 197 DDTVDVGAEIAKIGDAGAAAAEDAKAEEEAEAKAEAKPEEKPDPKKDEAAEPEPDEPEAE 256

Query: 125 NDIQDSSFAHAPTSSIT 141
              +    A A  ++ +
Sbjct: 257 KAEKKEEKAAAAPAANS 273


>gnl|CDD|183431 PRK12315, PRK12315, 1-deoxy-D-xylulose-5-phosphate synthase;
           Provisional.
          Length = 581

 Score = 50.4 bits (121), Expect = 1e-06
 Identities = 56/235 (23%), Positives = 97/235 (41%), Gaps = 32/235 (13%)

Query: 187 ERVIDTPITEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQI-----INSAAKTRYMS 241
           ++ +D  I E        G +  G +P++ F+   F  +A DQ+     IN+      + 
Sbjct: 320 DQYVDVGIAEQESVAFASGIAANGARPVI-FVNSTFLQRAYDQLSHDLAINNNPAVMIVF 378

Query: 242 GGQITTSIVFRGPNGAAARVAAQHSQCYA-AWYSHVPGLKVVIPYTASDAKGLLKAAIRD 300
           GG I+ + V              H   +     S++P L  + P T  +   +L+ A+  
Sbjct: 379 GGSISGNDV-------------THLGIFDIPMISNIPNLVYLAPTTKEELIAMLEWALTQ 425

Query: 301 PN-PVIFL--ENEILYGSSFEVPMVDDLVIPIGRARIHRQGSDVTIISFGIGMTYATKAA 357
              PV     E+ +  G      +  D      +  + + G  V I++ G       K A
Sbjct: 426 HEHPVAIRVPEHGVESGP----TVDTDYSTL--KYEVTKAGEKVAILALGDFYELGEKVA 479

Query: 358 IEL-EKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLV-TVEEGYPQSSVGSTIA 410
            +L E+ GIDA LI+ + I  +D + + E +K+   LV T+E+G      G  IA
Sbjct: 480 KKLKEELGIDATLINPKFITGLDEELL-EKLKEDHELVVTLEDGILDGGFGEKIA 533


>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
          Length = 641

 Score = 49.3 bits (117), Expect = 2e-06
 Identities = 60/239 (25%), Positives = 98/239 (41%), Gaps = 20/239 (8%)

Query: 188 RVIDTPITEHGFAGIGIGASFAGLKPIVEFMTFNFAMQAIDQIINSAAKTRYMSGGQITT 247
           R  D  I E        G +  GLKP     + +F  +A DQ+++     +      +  
Sbjct: 400 RCFDVGIAEQHAVTFAAGLACEGLKPFCTIYS-SFMQRAYDQVVHDVDLQKL----PVRF 454

Query: 248 SIVFRGPNGAAARVAAQHSQCY-AAWYSHVPGLKVVIPYTASDAKGLL-KAAIRDPNPVI 305
           +I   G  GA       H   +   + + +P + V+ P   ++   ++  AA  D  P  
Sbjct: 455 AIDRAGLMGADG---PTHCGAFDVTFMACLPNMIVMAPSDEAELFNMVATAAAIDDRPSC 511

Query: 306 FLENEILYGSSFEV---PMVDDLVIPIGRARIHRQGSDVTIISFGIGMTYATKAAIELEK 362
           F  +    G+   V   P    + + IGR RI R G  V ++ +G  +    +AA  L +
Sbjct: 512 FRYHR---GNGIGVSLPPGNKGVPLQIGRGRILRDGERVALLGYGSAVQRCLEAASMLSE 568

Query: 363 NGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEEGYPQSSVGSTIANQVQRKVFDYL 421
            G+   + D R  +P+D   I    K    L+TVEEG    S+G   ++ VQ    D L
Sbjct: 569 RGLKITVADARFCKPLDVALIRSLAKSHEVLITVEEG----SIGGFGSHVVQFLALDGL 623


>gnl|CDD|183337 PRK11854, aceF, pyruvate dehydrogenase
          dihydrolipoyltransacetylase; Validated.
          Length = 633

 Score = 48.8 bits (117), Expect = 3e-06
 Identities = 22/84 (26%), Positives = 34/84 (40%), Gaps = 3/84 (3%)

Query: 1  MPILVTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKIL 60
          M I + +P +     E  + +     GD ++    +  VE DKA MEV S   G++ +I 
Sbjct: 1  MAIEIKVPDIG--ADEVEVTEILVKVGDKVEAEQSLITVEGDKASMEVPSPQAGVVKEIK 58

Query: 61 CPNGTKNVKVNTPIAAILQEGETA 84
             G K V+    I         A
Sbjct: 59 VKVGDK-VETGALIMIFESADGAA 81



 Score = 40.0 bits (94), Expect = 0.001
 Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 3/80 (3%)

Query: 5   VTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
           V +P +     E  + +     GD ++    +  VE DKA MEV +   G + +I    G
Sbjct: 108 VHVPDIG--SDEVEVTEILVKVGDTVEAEQSLITVEGDKASMEVPAPFAGTVKEIKVNVG 165

Query: 65  TKNVKVNTPIAAILQEGETA 84
            K V   + I      GE  
Sbjct: 166 DK-VSTGSLIMVFEVAGEAP 184



 Score = 39.6 bits (93), Expect = 0.002
 Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 3/77 (3%)

Query: 5   VTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
           V +P +     E  + +     GD ++    +  VE DKA MEV +   G + +I    G
Sbjct: 209 VNVPDIG--GDEVEVTEVMVKVGDKVEAEQSLITVEGDKASMEVPAPFAGTVKEIKVNVG 266

Query: 65  TKNVKVNTPIAAILQEG 81
            K VK  + I     EG
Sbjct: 267 DK-VKTGSLIMRFEVEG 282


>gnl|CDD|178194 PLN02582, PLN02582, 1-deoxy-D-xylulose-5-phosphate synthase.
          Length = 677

 Score = 47.2 bits (112), Expect = 8e-06
 Identities = 25/73 (34%), Positives = 39/73 (53%)

Query: 327 IPIGRARIHRQGSDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQTIFES 386
           I +G+ RI  +G  V ++ +G  +     AA  LE++G+ A + D R  +P+D   I   
Sbjct: 532 IEVGKGRILLEGERVALLGYGTAVQSCLAAASLLERHGLSATVADARFCKPLDRALIRSL 591

Query: 387 VKKTGRLVTVEEG 399
            K    L+TVEEG
Sbjct: 592 AKSHEVLITVEEG 604


>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
          Length = 463

 Score = 42.0 bits (98), Expect = 3e-04
 Identities = 24/101 (23%), Positives = 53/101 (52%), Gaps = 3/101 (2%)

Query: 7   MPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTK 66
           +P +  ++T+G +A + K  G+ ++  + I ++ETDK  +++ S   G++ + L   G  
Sbjct: 96  VPHMGESITDGTLATFLKKPGERVQADEAIAQIETDKVTIDIASPASGVIQEFLVKEG-D 154

Query: 67  NVKVNTPIAAILQEGETALDI--DKMLLEKPDVAISPSSKN 105
            V+  T +A I +  + A  +   + + E  D   SP +++
Sbjct: 155 TVEPGTKVAIISKSEDAASQVTPSQKIPETTDPKPSPPAED 195


>gnl|CDD|181999 PRK09622, porA, pyruvate flavodoxin oxidoreductase subunit alpha;
           Reviewed.
          Length = 407

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 35/156 (22%), Positives = 67/156 (42%), Gaps = 28/156 (17%)

Query: 291 KGLLKAAIRDPNPVI---FLENEILYGSSF---EVPMVDDLVIPIGRARIHRQGSDVTII 344
           K  L  A+   + VI   F +   L G  +   E   ++D              ++V I+
Sbjct: 228 KAQLHHALMSSSSVIEEVFNDFAKLTGRKYNLVETYQLED--------------AEVAIV 273

Query: 345 SFGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEEGYPQSS 404
           + G     A  AA E+ K GI A +  +R +RP  ++ + +++K    L  ++   P  +
Sbjct: 274 ALGTTYESAIVAAKEMRKEGIKAGVATIRVLRPFPYERLGQALKNLKALAILDRSSPAGA 333

Query: 405 VGSTIANQVQRKVFDY--LDAPILT-----ITGRDV 433
           +G  + N+V   V+       P+++     + GRD+
Sbjct: 334 MG-ALFNEVTSAVYQTQGTKHPVVSNYIYGLGGRDM 368


>gnl|CDD|178143 PLN02528, PLN02528, 2-oxoisovalerate dehydrogenase E2 component.
          Length = 416

 Score = 34.7 bits (80), Expect = 0.058
 Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 1/73 (1%)

Query: 21 KWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTKNVKVNTPIAAILQE 80
          +W   EGD +++   + EV++DKA +E+ S  +G + +I    G   VKV   +  I+ E
Sbjct: 17 RWFVKEGDQVEEFQPLCEVQSDKATIEITSRYKGKVAQINFSPGDI-VKVGETLLKIMVE 75

Query: 81 GETALDIDKMLLE 93
              L  D +LL 
Sbjct: 76 DSQHLRSDSLLLP 88


>gnl|CDD|162983 TIGR02712, urea_carbox, urea carboxylase.  Members of this family are
            ATP-dependent urea carboxylase, including characterized
            members from Oleomonas sagaranensis (alpha class
            Proteobacterium) and yeasts such as Saccharomyces
            cerevisiae. The allophanate hydrolase domain of the yeast
            enzyme is not included in this model and is represented
            by an adjacent gene in Oleomonas sagaranensis. The fusion
            of urea carboxylase and allophanate hydrolase is
            designated urea amidolyase. The enzyme from Oleomonas
            sagaranensis was shown to be highly active on acetamide
            and formamide as well as urea.
          Length = 1201

 Score = 34.2 bits (79), Expect = 0.063
 Identities = 16/48 (33%), Positives = 22/48 (45%)

Query: 17   GNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
            GN  K     GD ++ G  +  +E  K  M V +   G + KILC  G
Sbjct: 1141 GNFWKVLVEVGDRVEAGQPLVILEAMKMEMPVSAPVAGKVTKILCQPG 1188


>gnl|CDD|162205 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit.  This
           model describes the bacterial oxaloacetate decarboxylase
           alpha subunit and its equivalents in archaea. The
           oxaloacetate decarboxylase Na+ pump is the paradigm of
           the family of Na+ transport decarboxylases that present
           in bacteria and archaea. It a multi subunit enzyme
           consisting of a peripheral alpha-subunit and integral
           membrane subunits beta and gamma. The energy released by
           the decarboxylation reaction of oxaloacetate is coupled
           to Na+ ion pumping across the membrane.
          Length = 582

 Score = 33.6 bits (77), Expect = 0.10
 Identities = 14/50 (28%), Positives = 27/50 (54%)

Query: 17  GNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTK 66
           G+I K K +EG  + +G+++  +E  K   E+++   G + +IL   G  
Sbjct: 526 GSIVKVKVSEGQTVAEGEVLLILEAMKMETEIKAAAAGTVREILVKVGDA 575


>gnl|CDD|163218 TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase,
           alpha subunit.  Indolepyruvate ferredoxin oxidoreductase
           (IOR) is an alpha 2/beta 2 tetramer related to ketoacid
           oxidoreductases for pyruvate (1.2.7.1, POR),
           2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate
           (1.2.7.7, VOR). These multi-subunit enzymes typically
           are found in anaerobes and are inactiviated by oxygen.
           IOR in Pyrococcus acts in fermentation of all three
           aromatic amino acids, following removal of the amino
           group by transamination. In Methanococcus maripaludis,
           by contrast, IOR acts in the opposite direction, in
           pathways of amino acid biosynthesis from phenylacetate,
           indoleacetate, and p-hydroxyphenylacetate. In M.
           maripaludis and many other species, iorA and iorB are
           found next to an apparent phenylacetate-CoA ligase.
          Length = 595

 Score = 33.5 bits (77), Expect = 0.11
 Identities = 22/114 (19%), Positives = 45/114 (39%), Gaps = 10/114 (8%)

Query: 333 RIHRQGSDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGR 392
           R+   G+ + +I+ GI   Y  +A   LE+ G+D  ++ +    P+    + E +     
Sbjct: 225 RLEINGAKIGVIASGIAYNYVKEA---LERLGVDVSVLKIGFTYPVPEGLVEEFLSGVEE 281

Query: 393 LVTVEEGYPQSSVGSTIANQVQRKVFDY-LDAPILTITGRDVPMPYAANLEKLA 445
           ++ VEE  P       +  QV+       L+  +       +P     N + + 
Sbjct: 282 VLVVEELEP------VVEEQVKALAGTAGLNIKVHGKEDGFLPREGELNPDIVV 329


>gnl|CDD|181526 PRK08659, PRK08659, 2-oxoglutarate ferredoxin oxidoreductase
           subunit alpha; Validated.
          Length = 376

 Score = 33.3 bits (77), Expect = 0.15
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 339 SDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVE 397
           ++V ++++G     A +A  E  + GI   L  L T+ P   + I E  KK   +V  E
Sbjct: 274 AEVVVVAYGSVARSARRAVKEAREEGIKVGLFRLITVWPFPEEAIRELAKKVKAIVVPE 332


>gnl|CDD|162310 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
           dihydrolipoamide acetyltransferase, long form.  This
           model describes a subset of pyruvate dehydrogenase
           complex dihydrolipoamide acetyltransferase specifically
           close by both phylogenetic and per cent identity (UPGMA)
           trees. Members of this set include two or three copies
           of the lipoyl-binding domain. E. coli AceF is a member
           of this model, while mitochondrial and some other
           bacterial forms belong to a separate model.
          Length = 546

 Score = 32.9 bits (75), Expect = 0.17
 Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 9/90 (10%)

Query: 16  EGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNGTKNVKV--NTP 73
           EG + +     GD ++ G  +  +E+DKA MEV S   GI+ +I        VKV    P
Sbjct: 13  EGEVIEVLVKPGDKVEAGQSLITLESDKASMEVPSSAAGIIKEI-------KVKVGDTLP 65

Query: 74  IAAILQEGETALDIDKMLLEKPDVAISPSS 103
           +  ++   E           K + A +P++
Sbjct: 66  VGGVIATLEVGAGAQAQAEAKKEAAPAPTA 95



 Score = 28.7 bits (64), Expect = 3.1
 Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 10/67 (14%)

Query: 5   VTMPSLSPTMTEGNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
           VT+P +   + +  + +     GD +     +  +E+DKA MEV +   G++        
Sbjct: 119 VTVPDIG-DIEKVTVIEVLVKVGDTVSADQSLITLESDKASMEVPAPASGVV-------- 169

Query: 65  TKNVKVN 71
            K+VKV 
Sbjct: 170 -KSVKVK 175


>gnl|CDD|162672 TIGR02040, PpsR-CrtJ, transcriptional regulator PpsR.  This model
           represents the transcriptional regulator PpsR which is
           strictly associated with photosynthetic proteobacteria
           and found in photosynthetic operons. PpsR has been
           reported to be a repressor. These proteins contain a
           Helix-Turn_Helix motif of the "fis" type (pfam02954).
          Length = 442

 Score = 32.9 bits (75), Expect = 0.21
 Identities = 15/65 (23%), Positives = 27/65 (41%)

Query: 281 VVIPYTASDAKGLLKAAIRDPNPVIFLENEILYGSSFEVPMVDDLVIPIGRARIHRQGSD 340
           +V   +    +  L  A+R     + +E   +  SSFE+PM   LV       +   G D
Sbjct: 44  IVTAESVEKFELRLSEALRTGRGAVRVELNHIDPSSFELPMRFILVRLGADRGVLALGRD 103

Query: 341 VTIIS 345
           +  ++
Sbjct: 104 LRAVA 108


>gnl|CDD|180309 PRK05899, PRK05899, transketolase; Reviewed.
          Length = 624

 Score = 32.8 bits (76), Expect = 0.22
 Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 4/71 (5%)

Query: 336 RQGSDVTIISFGIGMTYATKAAIELEKNGIDAELIDLRTIRPMDWQ--TIFESV--KKTG 391
           R   DV +I+ G  +  A +AA ELE  GI   ++ + +    D Q     ESV      
Sbjct: 508 RDDPDVILIATGSEVHLALEAADELEAEGIKVRVVSMPSTELFDEQDAAYKESVLPAAVT 567

Query: 392 RLVTVEEGYPQ 402
             V VE G   
Sbjct: 568 ARVAVEAGVAD 578


>gnl|CDD|181304 PRK08225, PRK08225, acetyl-CoA carboxylase biotin carboxyl
          carrier protein subunit; Validated.
          Length = 70

 Score = 30.1 bits (68), Expect = 1.1
 Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 3  ILVTMPSLSPTMTE--GNIAKWKKNEGDLIKQGDIIYEVE 40
          IL +M    P + E  G + K    EGD + +GD++ E+E
Sbjct: 31 ILESMKMEIPIVAEEAGTVKKINVQEGDFVNEGDVLLEIE 70


>gnl|CDD|181754 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
          Length = 592

 Score = 29.0 bits (66), Expect = 2.4
 Identities = 16/48 (33%), Positives = 26/48 (54%)

Query: 17  GNIAKWKKNEGDLIKQGDIIYEVETDKAVMEVESIDEGILGKILCPNG 64
           G + K K  EGD +K GD +  +E  K   E+++  +G + +IL   G
Sbjct: 531 GTVVKVKVKEGDKVKAGDTVLVLEAMKMENEIQAPVDGTVKEILVKEG 578


>gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase
           A/UDP-N-acetylmuramate--L-alanine ligase; Provisional.
          Length = 809

 Score = 28.6 bits (64), Expect = 3.4
 Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 5/30 (16%)

Query: 138 SSITV-----REALRDAIAEEMRRDKDVFI 162
           SSI V      E LRD I+E    D DVF+
Sbjct: 622 SSIGVFEVHNVEELRDKISEAFLYDTDVFV 651


>gnl|CDD|163422 TIGR03710, OAFO_sf, 2-oxoacid:acceptor oxidoreductase, alpha
           subunit.  The genes for this enzyme in Prevotella
           intermedia 17, Persephonella marina EX-H1 and
           Picrophilus torridus DSM 9790 are in close proximity to
           a variety of TCA cycle genes. Persephonella marina and
           P. torridus are believed to encode complete TCA cycles,
           and none of these contains the lipoate-based
           2-oxoglutarate dehydrogenase (E1/E2/E3) system. That
           system is presumed to be replaced by this one. In fact,
           the lipoate system is absent in most organisms
           possessing a member of this family, providing additional
           circumstantial evidence that many of these enzymes are
           capable of acting as 2-oxoglutarate dehydrogenases and
           supporting flux through TCA cycles in either the forward
           or reverse directions.
          Length = 562

 Score = 28.6 bits (65), Expect = 3.6
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 2/62 (3%)

Query: 340 DVTIISFGIGMTYATKAAIE-LEKNGIDAELIDLRTIRPMDWQTIFESVKKTGRLVTVEE 398
           DV +I +G     A + A+E L   GI   L+ LR + P     + E ++   +++ VE+
Sbjct: 465 DVLVIGWG-STYGAIREAVERLRAEGIKVALLHLRLLYPFPKDELAELLEGAKKVIVVEQ 523

Query: 399 GY 400
             
Sbjct: 524 NA 525


>gnl|CDD|161960 TIGR00615, recR, recombination protein RecR.  This family is based
           on the phylogenomic analysis of JA Eisen (1999, Ph.D.
           Thesis, Stanford University).
          Length = 195

 Score = 28.5 bits (64), Expect = 3.9
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 11/43 (25%)

Query: 149 AIAEEMRRD----------KDVFIMGEEVAEYQGAYKVTQGLL 181
            I  + RRD          KDVF + E+  E++G Y V  G +
Sbjct: 69  NICSDERRDNSVICVVEDPKDVFAL-EKTKEFRGRYHVLGGHI 110


>gnl|CDD|184504 PRK14097, pgi, glucose-6-phosphate isomerase; Provisional.
          Length = 448

 Score = 28.3 bits (64), Expect = 4.2
 Identities = 9/23 (39%), Positives = 14/23 (60%)

Query: 202 IGIGASFAGLKPIVEFMTFNFAM 224
           IGIG S+ G +  +EF+  +F  
Sbjct: 79  IGIGGSYLGARAAIEFLNHSFYN 101


>gnl|CDD|180286 PRK05848, PRK05848, nicotinate-nucleotide pyrophosphorylase;
          Provisional.
          Length = 273

 Score = 28.5 bits (64), Expect = 4.4
 Identities = 9/32 (28%), Positives = 18/32 (56%)

Query: 15 TEGNIAKWKKNEGDLIKQGDIIYEVETDKAVM 46
            G    +   +G+  K+GDI+ E+E D +++
Sbjct: 55 MTGIECVFTIKDGERFKKGDILMEIEGDFSML 86


>gnl|CDD|180516 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
          Length = 460

 Score = 27.8 bits (63), Expect = 5.7
 Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 1/25 (4%)

Query: 125 NDIQDSSFAHAPTSSITVREALRDA 149
            D+    F H PT S  +R ALRD 
Sbjct: 430 EDLLRMPFYH-PTLSEGLRTALRDL 453


>gnl|CDD|180860 PRK07152, nadD, putative nicotinate-nucleotide adenylyltransferase;
           Validated.
          Length = 342

 Score = 27.2 bits (61), Expect = 8.7
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 8/46 (17%)

Query: 420 YLDAPILTITGRDVPMPYAANLEKLAL-PNVDEIIESVESICYKRK 464
           Y +  I  I G D       NLEK     N++EI++ V+ + +KRK
Sbjct: 95  YPNDEIYFIIGSD-------NLEKFKKWKNIEEILKKVQIVVFKRK 133


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.316    0.134    0.378 

Gapped
Lambda     K      H
   0.267   0.0819    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,671,126
Number of extensions: 514252
Number of successful extensions: 1189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1176
Number of HSP's successfully gapped: 61
Length of query: 467
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 370
Effective length of database: 3,898,497
Effective search space: 1442443890
Effective search space used: 1442443890
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.3 bits)