RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781024|ref|YP_003065437.1| electron transfer
flavoprotein-ubiquinone oxidoreductase [Candidatus Liberibacter
asiaticus str. psy62]
         (554 letters)



>gnl|CDD|37626 KOG2415, KOG2415, KOG2415, Electron transfer flavoprotein
           ubiquinone oxidoreductase [Energy production and
           conversion].
          Length = 621

 Score =  575 bits (1483), Expect = e-164
 Identities = 253/557 (45%), Positives = 360/557 (64%), Gaps = 19/557 (3%)

Query: 10  KDVFEYDVVIIGAGPAGLAAAIRCKQI----NPHLSVVILEKSAEVGAHILSGAIIDPIG 65
           ++  E DVVI+GAGPAGL+AAIR KQ+    N  L V ++EK+AEVG H LSGA+I+P  
Sbjct: 72  RESEEVDVVIVGAGPAGLSAAIRLKQLAAKANKDLRVCVVEKAAEVGGHTLSGAVIEPGA 131

Query: 66  IDSLLPRWREDKGHPFHTVVKRDLYWFLNAQRSIQIPHFCLPDFMDNKEHYIVSLGQVCR 125
           +D LLP W+ED G P +T V  D + FL  +  I +P   +P  MDN  +Y+VSLGQ+ R
Sbjct: 132 LDELLPDWKED-GAPLNTPVTSDKFKFLTGKGRISVP---VPSPMDNHGNYVVSLGQLVR 187

Query: 126 WLKNKAEALGVEIYCGFTATEIYYGKKGEALGILTGEKGKNYDGTQGKHYIAPMLLLSKY 185
           WL  KAE LGVEIY GF A+E+ Y + G   GI T + G + DG     +   M   +K 
Sbjct: 188 WLGEKAEELGVEIYPGFAASEVLYDEDGSVKGIATNDVGISKDGAPKDTFERGMEFHAKV 247

Query: 186 MLVGEGACGSLTRQLIERYSLMDGRQPQKFGLGIKELWKIKPQYHRRGLALHSIGWPLDM 245
            +  EG  GSL++Q+I+++ L +  +PQ +GLG+KE+W+I P+ H  G   H++GWPLD 
Sbjct: 248 TIFAEGCHGSLSKQIIKKFDLRENCEPQTYGLGLKEVWEIDPENHNPGEVAHTLGWPLDN 307

Query: 246 NTSGGGFVYHFDDNLVSIGFVLHLDYRNPWISAYEELQRFKTHPDIRIIFTEGERLEYGA 305
           +T GG F+YHF+D LV++G V+ LDY+NP++S Y+E Q+ K HP I  +   G+R+ YGA
Sbjct: 308 DTYGGSFLYHFNDPLVAVGLVVGLDYKNPYLSPYKEFQKMKHHPSISKVLEGGKRIAYGA 367

Query: 306 RVISEGGWQSVPKLSFPGGSLIGCAAGFVNLLRIKGSHNAIISGMLAAEKIVERLSNGKK 365
           R ++EGG+QS+PKL FPGG+LIGC+AGF+N+ +IKG+H A+ SGMLAAE I E +    +
Sbjct: 368 RALNEGGFQSIPKLVFPGGALIGCSAGFLNVPKIKGTHTAMKSGMLAAESIFEAIKGLPQ 427

Query: 366 HD----DPIEIEDSWRQTQIGKDLWIIRNIKPLLSRF-GVFIGLSLGLMDIWIQKILGFS 420
                 DP   E++ + + + K+L+ +RNI+P      G++ G+    +  +   +L   
Sbjct: 428 SKMAGLDPTTYEENLKDSYVWKELYSVRNIRPSFHGKLGLYGGMIYSGIFSY---VLKGK 484

Query: 421 FLGTLKHHKMDSCSLEAASQHKKIDYPKPDGKLTFDIMSSLFLAKVKYVKEQPMHLLIKD 480
              TLKH K D  +L+ AS++K I YPKPDG L+FD+++S+  +   + ++QP HL ++D
Sbjct: 485 VPWTLKHGKNDHEALKPASKYKPIVYPKPDGVLSFDLLTSVSRSGTNHDEDQPAHLTLRD 544

Query: 481 KDLQKKSELRIYSGPSMRYCPAGVYEWHQNNDENN---YIIHAQNCIHCKACVIKDPNQN 537
            D+  K    +Y GP  R+CPAGVYE+  +          I+AQNCIHCK C IKDP QN
Sbjct: 545 DDIPVKVNFPVYKGPESRFCPAGVYEYVPDEAGPVGKRLQINAQNCIHCKTCDIKDPKQN 604

Query: 538 IEWNPPQGGDGPHYVDM 554
           I W  P+GG GP Y  M
Sbjct: 605 INWVVPEGGGGPKYTLM 621


>gnl|CDD|30989 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
           and conversion].
          Length = 396

 Score =  254 bits (649), Expect = 5e-68
 Identities = 134/454 (29%), Positives = 205/454 (45%), Gaps = 63/454 (13%)

Query: 13  FEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIGIDSLLPR 72
            EYDVVI+GAGPAG +AA R  +    L V++LEK +E GA    G  + P  ++ L+P 
Sbjct: 2   MEYDVVIVGAGPAGSSAARRLAKAG--LDVLVLEKGSEPGAKPCCGGGLSPRALEELIPD 59

Query: 73  WREDKGHPFHTVVKRDLYWFLNAQRSIQIPHFCLPDFMDNKEHYIVSLGQVCRWLKNKAE 132
           + E+        V     +F   + +I++P           E YIV   +  +WL  +AE
Sbjct: 60  FDEE----IERKVTGARIYFPGEKVAIEVPV---------GEGYIVDRAKFDKWLAERAE 106

Query: 133 ALGVEIYCGFTATEIYYGKKGEALGILTGEKGKNYDGTQGKHYIAPMLLLSKYMLVGEGA 192
             G E+Y G   T +     G  +G+  G+                  + +K ++  +G 
Sbjct: 107 EAGAELYPGTRVTGVIREDDGVVVGVRAGD----------------DEVRAKVVIDADGV 150

Query: 193 CGSLTRQLIERYSLMDGRQPQKFGLGIKELWKIKPQYHRRGLALHSIGWPLDMNTSGGGF 252
             +L R+L      +  R+P+ + +G+KE+ ++       G     +  PLD+   G G+
Sbjct: 151 NSALARKLG-----LKDRKPEDYAIGVKEVIEV----PDDGDVEEFLYGPLDVGPGGYGW 201

Query: 253 VYHFDDNLVSIGFVLHLDYRNPWISAYEELQRFKTHPDIRIIFTEGERLEYGARVISEGG 312
           ++   D   ++G  + LD  +      E L+RFK HP IR +   G+ LEY A  I EGG
Sbjct: 202 IFPLGDGHANVGIGVLLDDPSLSPF-LELLERFKEHPAIRKLLLGGKILEYAAGGIPEGG 260

Query: 313 WQSVPKLSFPGGSLIGCAAGFVNLLRIKGSHNAIISGMLAAEKIVERLSNGKKHDDPIEI 372
             S P L   G  L+G AAGFVN L  +G   AI SG LAAE I E L  G+  +   E 
Sbjct: 261 PASRP-LVGDGVLLVGDAAGFVNPLTGEGIRYAIKSGKLAAEAIAEALEGGE--EALAEY 317

Query: 373 EDSWRQTQIGKDLWIIRNIKPLLSRFGVFIGLSLGLMDIWIQKILGFSFLGTLKHHKMDS 432
           E   R++   +DL  +R +K LL             +   I+ +     LG +K +    
Sbjct: 318 ERLLRKSLAREDLKSLRLLKLLLRLL-------DRTLPALIKLLADKDLLGLIKKYL--- 367

Query: 433 CSLEAASQHKKIDYPKPDGKLT-FDIMSSLFLAK 465
                    K I YP   G L  FD++ S+  + 
Sbjct: 368 --------RKLILYPLLKGVLARFDLLKSVKRSL 393


>gnl|CDD|147396 pfam05187, ETF_QO, Electron transfer flavoprotein-ubiquinone
           oxidoreductase.  Electron-transfer
           flavoprotein-ubiquinone oxidoreductase (ETF-QO) in the
           inner mitochondrial membrane accepts electrons from
           electron-transfer flavoprotein which is located in the
           mitochondrial matrix and reduces ubiquinone in the
           mitochondrial membrane. The two redox centres in the
           protein, FAD and a [4Fe4S] cluster, are present in a
           64-kDa monomer.
          Length = 110

 Score =  133 bits (338), Expect = 9e-32
 Identities = 55/113 (48%), Positives = 75/113 (66%), Gaps = 3/113 (2%)

Query: 399 GVFIGLSLGLMDIWIQKILGFSFLGTLKHHKMDSCSLEAASQHKKIDYPKPDGKLTFDIM 458
           G+++GL+   +D WI +  G S   TLKHHK D  +L+ AS+ K IDYPKPDGKLTFD +
Sbjct: 1   GLWLGLAYAGLDQWILR--GKSPW-TLKHHKPDHAALKPASECKPIDYPKPDGKLTFDRL 57

Query: 459 SSLFLAKVKYVKEQPMHLLIKDKDLQKKSELRIYSGPSMRYCPAGVYEWHQNN 511
           SS+FL+   + ++QP HL +KD  +     L  Y+GP  RYCPAGVYE  ++ 
Sbjct: 58  SSVFLSNTNHEEDQPCHLKLKDPSVPIAVNLPKYAGPEQRYCPAGVYEIVEDE 110


>gnl|CDD|30999 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and related
           FAD-dependent oxidoreductases [Coenzyme metabolism /
           Energy production and conversion].
          Length = 387

 Score = 57.4 bits (138), Expect = 9e-09
 Identities = 32/139 (23%), Positives = 49/139 (35%), Gaps = 16/139 (11%)

Query: 15  YDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIGIDSL----- 69
            DV I+GAGPAGLA A+   +    L V +LE++         G  + P  + +L     
Sbjct: 3   LDVAIVGAGPAGLALALALARAG--LDVTLLERAPRELLERGRGIALSPNALRALERLGL 60

Query: 70  LPRWREDKGHPFHTVVKRDLYWFLNAQRSIQIPHFCLPDFMDNKEHYIVSLGQVCRWLKN 129
             R       P H      +      +R +    F   +       Y+V    +   L  
Sbjct: 61  WDRLEALGVPPLHV-----MVVDDGGRRLL---IFDAAELGRGALGYVVPRSDLLNALLE 112

Query: 130 KAEALG-VEIYCGFTATEI 147
            A AL  V +  G     +
Sbjct: 113 AARALPNVTLRFGAEVEAV 131


>gnl|CDD|32561 COG2440, FixX, Ferredoxin-like protein [Energy production and
           conversion].
          Length = 99

 Score = 53.4 bits (128), Expect = 2e-07
 Identities = 26/99 (26%), Positives = 47/99 (47%), Gaps = 9/99 (9%)

Query: 454 TFDIMSSLFLAKVKYVKEQPMHLLIKDKDLQKKSELRIYSGPSMRYCPAGVYEWHQNNDE 513
             +I   L + +    ++ P H+++KD D  ++ E +    P ++ CPAG Y+     D+
Sbjct: 6   MMNIEEKLSVNRYNVDEDHP-HIIVKDPDDCQECEDK----PLIKACPAGCYKL---IDD 57

Query: 514 NNYIIHAQNCIHCKAC-VIKDPNQNIEWNPPQGGDGPHY 551
                  + C+ C  C V+   +  I+W  P+GG G  Y
Sbjct: 58  GKLRFDYEGCLECGTCRVLCPHSGLIQWRYPRGGFGITY 96


>gnl|CDD|31441 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
          dihydrolipoamide dehydrogenase (E3) component, and
          related enzymes [Energy production and conversion].
          Length = 454

 Score = 51.4 bits (123), Expect = 6e-07
 Identities = 22/40 (55%), Positives = 27/40 (67%), Gaps = 2/40 (5%)

Query: 13 FEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
           EYDVV+IGAGPAG  AAIR  Q+   L V ++EK   +G
Sbjct: 3  KEYDVVVIGAGPAGYVAAIRAAQL--GLKVALVEKGERLG 40


>gnl|CDD|36549 KOG1335, KOG1335, KOG1335, Dihydrolipoamide dehydrogenase [Energy
           production and conversion].
          Length = 506

 Score = 50.3 bits (120), Expect = 1e-06
 Identities = 38/156 (24%), Positives = 60/156 (38%), Gaps = 26/156 (16%)

Query: 14  EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILS-GAIIDPIGIDSLLPR 72
           +YDVV+IG GP G  AAI+  Q+   L    +EK   +G   L+ G I       +LL  
Sbjct: 39  DYDVVVIGGGPGGYVAAIKAAQLG--LKTACVEKRGTLGGTCLNVGCIPS----KALL-- 90

Query: 73  WREDKGHPFHTVVKRDLYWFLNAQRSIQIP--HFCLPDFMDNKEHYIVSLGQVCRWLKNK 130
              +  H +H     D      A R I +      L   M  K++ +  L      ++N 
Sbjct: 91  ---NNSHLYHEAQHEDF-----ASRGIDVSSVSLDLQAMMKAKDNAVKQLTGG---IENL 139

Query: 131 AEALGVEIYCGFTA----TEIYYGKKGEALGILTGE 162
            +   V    GF +     ++   K      I+  +
Sbjct: 140 FKKNKVTYVKGFGSFLDPNKVSVKKIDGEDQIIKAK 175


>gnl|CDD|146239 pfam03486, HI0933_like, HI0933-like protein. 
          Length = 405

 Score = 50.3 bits (121), Expect = 2e-06
 Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 3/45 (6%)

Query: 15 YDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHIL-SG 58
          YDV++IG G AGL AAI   +      V+++EK  ++G  IL SG
Sbjct: 1  YDVIVIGGGAAGLMAAISAAK--RGRRVLLIEKGKKLGRKILISG 43


>gnl|CDD|144475 pfam00890, FAD_binding_2, FAD binding domain.  This family
          includes members that bind FAD. This family includes
          the flavoprotein subunits from succinate and fumarate
          dehydrogenase, aspartate oxidase and the alpha subunit
          of adenylylsulphate reductase.
          Length = 401

 Score = 50.0 bits (120), Expect = 2e-06
 Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 16 DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHI 55
          DVV+IG+G AGLAAA+   +    L V ++EK    G   
Sbjct: 1  DVVVIGSGLAGLAAALEAAE--AGLKVAVVEKGQPFGGAT 38


>gnl|CDD|31425 COG1232, HemY, Protoporphyrinogen oxidase [Coenzyme metabolism].
          Length = 444

 Score = 49.5 bits (118), Expect = 2e-06
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 5/63 (7%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILS----GAIIDPIGIDSLLPR 72
          + IIG G AGL+AA R ++  P + V + E    VG  + +    G + +  G    L R
Sbjct: 3  IAIIGGGIAGLSAAYRLQKAGPDVEVTLFEADDRVGGLLRTVKIDGFLFE-RGPHHFLAR 61

Query: 73 WRE 75
            E
Sbjct: 62 KEE 64


>gnl|CDD|31253 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase,
          flavoprotein subunit [Energy production and
          conversion].
          Length = 562

 Score = 48.4 bits (115), Expect = 4e-06
 Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 12 VFEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAH 54
          + E+DVV+IG G AGL AAI   +    L V +L K+     H
Sbjct: 4  IHEFDVVVIGGGGAGLRAAIEAAEAG--LKVALLSKAPPKRGH 44


>gnl|CDD|30838 COG0492, TrxB, Thioredoxin reductase [Posttranslational
          modification, protein turnover, chaperones].
          Length = 305

 Score = 48.0 bits (114), Expect = 8e-06
 Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
           YDV+IIG GPAGL AAI   +    L VV++ +  E G
Sbjct: 3  IYDVIIIGGGPAGLTAAIYAARAG--LKVVLILEGGEPG 39


>gnl|CDD|32255 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
          [Inorganic ion transport and metabolism].
          Length = 443

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 20/38 (52%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 15 YDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
           DV IIGAG +GLAAA   KQ       VI EK  +VG
Sbjct: 9  TDVAIIGAGQSGLAAAYALKQAGVP-DFVIFEKRDDVG 45


>gnl|CDD|36613 KOG1399, KOG1399, KOG1399, Flavin-containing monooxygenase
           [Secondary metabolites biosynthesis, transport and
           catabolism].
          Length = 448

 Score = 46.5 bits (110), Expect = 2e-05
 Identities = 28/139 (20%), Positives = 51/139 (36%), Gaps = 23/139 (16%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIGIDSLLPRWRE 75
           DV +IGAGPAGLAAA    +      VV+ E++ ++G                   ++ E
Sbjct: 8   DVAVIGAGPAGLAAARELLR--EGHEVVVFERTDDIGGLW----------------KYTE 49

Query: 76  DKGHPFHTVVKRDLYWFLNAQRSIQIPHFCLPDFMDNKEHYIVSLGQVCRWLKNKAEALG 135
           +      +V K      L      ++  +    F +    Y  S  +V  +L++ A+   
Sbjct: 50  NVEVVHSSVYKS-----LRTNLPKEMMGYSDFPFPERDPRYFPSHREVLEYLRDYAKHFD 104

Query: 136 VEIYCGFTATEIYYGKKGE 154
           +     F    +      +
Sbjct: 105 LLKMINFNTEVVRVDSIDK 123


>gnl|CDD|31426 COG1233, COG1233, Phytoene dehydrogenase and related proteins
          [Secondary metabolites biosynthesis, transport, and
          catabolism].
          Length = 487

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 20/39 (51%), Positives = 24/39 (61%), Gaps = 2/39 (5%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
           YDVV+IGAG  GLAAA    +    L V +LEK+  VG
Sbjct: 3  MYDVVVIGAGLNGLAAAALLARAG--LKVTVLEKNDRVG 39


>gnl|CDD|144747 pfam01266, DAO, FAD dependent oxidoreductase.  This family includes
           various FAD dependent oxidoreductases:
           Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
           Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
           oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
          Length = 309

 Score = 45.4 bits (108), Expect = 4e-05
 Identities = 41/176 (23%), Positives = 65/176 (36%), Gaps = 47/176 (26%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAH--------ILSGAIIDP---- 63
           DVV+IG G  GL+ A    +    LSV +LE+  ++ +         +  G   +     
Sbjct: 1   DVVVIGGGIVGLSTAYELAR--RGLSVTLLER-GDLASGASGRNAGLLHPGLRKERAPLL 57

Query: 64  --IGIDS--LLPRWREDKGHPFHT------VVKRD------LYWFLNAQRSIQIPHFCL- 106
             + ++S  L     E+ G           V+ RD      L     A R++ +P   L 
Sbjct: 58  ARLALESRDLWRELIEELGIDCDFRRTGVLVLARDEAELDALRRLAAALRALGLPVELLD 117

Query: 107 PDFMDNKEHYI---------------VSLGQVCRWLKNKAEALGVEIYCGFTATEI 147
            + +   E  +               V   ++ R L   AEALGVEI  G   T +
Sbjct: 118 AEELRELEPGLSPGIRGGLFYPDGGHVDPARLLRALARAAEALGVEILEGTEVTGL 173


>gnl|CDD|30924 COG0579, COG0579, Predicted dehydrogenase [General function
          prediction only].
          Length = 429

 Score = 44.9 bits (106), Expect = 6e-05
 Identities = 19/41 (46%), Positives = 22/41 (53%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAH 54
          +YDVVIIG G  G A A    +  P LSV +LEK   V   
Sbjct: 3  DYDVVIIGGGIMGAATAYELSEYEPDLSVALLEKEDGVAQE 43


>gnl|CDD|32264 COG2081, COG2081, Predicted flavoproteins [General function
          prediction only].
          Length = 408

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 2/42 (4%)

Query: 15 YDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHIL 56
          +DV+IIG GPAGL AAI   +      V++++K  ++G  IL
Sbjct: 4  FDVIIIGGGPAGLMAAISAAK--AGRRVLLIDKGPKLGRKIL 43


>gnl|CDD|38171 KOG2960, KOG2960, KOG2960, Protein involved in thiamine
           biosynthesis and DNA damage tolerance [General function
           prediction only].
          Length = 328

 Score = 41.2 bits (96), Expect = 8e-04
 Identities = 20/39 (51%), Positives = 24/39 (61%)

Query: 14  EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
           E DVVI+GAG AGL+AA    +  P L V I+E S   G
Sbjct: 76  ESDVVIVGAGSAGLSAAYVIAKNRPDLKVAIIESSVAPG 114


>gnl|CDD|35252 KOG0029, KOG0029, KOG0029, Amine oxidase [Secondary metabolites
          biosynthesis, transport and catabolism].
          Length = 501

 Score = 41.1 bits (96), Expect = 9e-04
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 21/70 (30%)

Query: 15 YDVVIIGAGPAGLAAAIRCKQI-NPHLSVVILEKS-----------------AEVGAHIL 56
            V++IGAG AGL+AA   +Q+ +    V++LE                    ++GA +L
Sbjct: 16 KKVIVIGAGLAGLSAA---RQLQDFGFDVLVLEARDRVGGRIYTFKSEGGDHVDLGASVL 72

Query: 57 SGAIIDPIGI 66
          +G   +P+ +
Sbjct: 73 TGVYNNPLAL 82


>gnl|CDD|31822 COG1635, THI4, Flavoprotein involved in thiazole biosynthesis
           [Coenzyme metabolism].
          Length = 262

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 44/215 (20%), Positives = 77/215 (35%), Gaps = 39/215 (18%)

Query: 10  KDVFEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIGIDSL 69
            D  E DV+I+GAGP+GL AA    +    L V I E+    G  I  G +        L
Sbjct: 26  LDYLESDVIIVGAGPSGLTAAYYLAKAG--LKVAIFERKLSFGGGIWGGGM--------L 75

Query: 70  LPRWREDKGHPFHTVVKRDLYWFLNAQRSIQIPHFCLPDFMDNKEHYIVSLGQVCRWLKN 129
             +           VV+ +    L       I      +  D   +Y+    +    L  
Sbjct: 76  FNK----------IVVREEADEIL---DEFGIR---YEEEEDG--YYVADSAEFASKLAA 117

Query: 130 KAEALGVEIYCGFTATEIYYGKKGEALGILTGEKGKNYDGTQGKH-YIAPMLLLSKYMLV 188
           +A   G +I+ G +  ++         G++      N+   Q    ++ P+ + +K ++ 
Sbjct: 118 RALDAGAKIFNGVSVEDVIVRDDPRVAGVVV-----NWTPVQMAGLHVDPLTIRAKAVVD 172

Query: 189 GEGACGSLTRQLIERYSLMDGRQPQKFGLGIKELW 223
             G    +   L +R   +    P     G K +W
Sbjct: 173 ATGHDAEVVSFLAKRIPELGIEVP-----GEKSMW 202


>gnl|CDD|30795 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
          [General function prediction only].
          Length = 415

 Score = 39.1 bits (90), Expect = 0.003
 Identities = 9/32 (28%), Positives = 19/32 (59%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEKS 48
          +VI+G G AGL+AA   +++     + ++ + 
Sbjct: 1  IVIVGGGAAGLSAATTLRRLLLAAEITLIGRE 32



 Score = 36.1 bits (82), Expect = 0.027
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 2/49 (4%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPI 64
           DVV++GAGP GL AA    +      V ++E +  +G  +L   + + +
Sbjct: 138 DVVVVGAGPIGLEAAEAAAKRG--KKVTLIEAADRLGGQLLDPEVAEEL 184


>gnl|CDD|31009 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
          acid transport and metabolism].
          Length = 387

 Score = 38.7 bits (89), Expect = 0.004
 Identities = 19/63 (30%), Positives = 25/63 (39%), Gaps = 4/63 (6%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKS--AEVGAHILSGAIIDPIGIDSLLP 71
          + DVVIIG G  GL+AA    +      V +LE        A   +G I+ P        
Sbjct: 4  KMDVVIIGGGIVGLSAAYYLAER--GADVTVLEAGEAGGGAAGRNAGGILAPWASPGGEL 61

Query: 72 RWR 74
            R
Sbjct: 62 EVR 64


>gnl|CDD|37876 KOG2665, KOG2665, KOG2665, Predicted FAD-dependent oxidoreductase
          [Function unknown].
          Length = 453

 Score = 38.4 bits (89), Expect = 0.005
 Identities = 16/41 (39%), Positives = 23/41 (56%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAH 54
           YD+V++G G  GLA+A      +P L V +LEK   +  H
Sbjct: 48 RYDLVVVGGGIVGLASARELSLRHPSLKVAVLEKEKSLAVH 88


>gnl|CDD|145231 pfam01946, Thi4, Thi4 family.  This family includes a putative
          thiamine biosynthetic enzyme.
          Length = 229

 Score = 37.4 bits (87), Expect = 0.010
 Identities = 21/48 (43%), Positives = 26/48 (54%), Gaps = 2/48 (4%)

Query: 11 DVFEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSG 58
          D  E DVVI+GAGP+GL AA    +    L V I+E+S   G     G
Sbjct: 14 DYAESDVVIVGAGPSGLTAAYYLAKKG--LKVAIIERSLSPGGGAWGG 59


>gnl|CDD|30379 COG0029, NadB, Aspartate oxidase [Coenzyme metabolism].
          Length = 518

 Score = 36.8 bits (85), Expect = 0.014
 Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 3/41 (7%)

Query: 9  NKDVFEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSA 49
          N D    DV+IIG+G AGL AA+      P   V +L K  
Sbjct: 2  NTDFEHPDVLIIGSGLAGLTAALSLA---PSFRVTVLTKGP 39


>gnl|CDD|30839 COG0493, GltD, NADPH-dependent glutamate synthase beta chain and
           related oxidoreductases [Amino acid transport and
           metabolism / General function prediction only].
          Length = 457

 Score = 36.1 bits (83), Expect = 0.024
 Identities = 24/77 (31%), Positives = 32/77 (41%), Gaps = 8/77 (10%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIGIDSLLPRWR- 74
            V +IGAGPAGLAAA    +      V + E+ A  G  +L G  I    +   +   R 
Sbjct: 125 KVAVIGAGPAGLAAADDLSRAG--HDVTVFERVALDGGLLLYG--IPDFKLPKDILDRRL 180

Query: 75  ---EDKGHPFHTVVKRD 88
              E  G  F   V+  
Sbjct: 181 ELLERSGVEFKLNVRVG 197


>gnl|CDD|35904 KOG0685, KOG0685, KOG0685, Flavin-containing amine oxidase
          [Coenzyme transport and metabolism].
          Length = 498

 Score = 36.1 bits (83), Expect = 0.027
 Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 3/42 (7%)

Query: 17 VVIIGAGPAGLAAAIR-CKQINPHLSVVILEKSAEVGAHILS 57
          +VIIGAG AGLAAA R  +     +   ILE S  +G  I +
Sbjct: 24 IVIIGAGIAGLAAATRLLENGFIDVL--ILEASDRIGGRIHT 63


>gnl|CDD|31342 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
           polyferredoxins [Energy production and conversion].
          Length = 622

 Score = 36.1 bits (83), Expect = 0.027
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 5/68 (7%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPI---GIDSLLPR 72
            V++IG G AG+ AA+    +     V ++EK   +G  +       P     I  L P+
Sbjct: 126 SVLVIGGGVAGITAALELADMG--FKVYLVEKEPSIGGRMAKLNKTFPTNDCSICILAPK 183

Query: 73  WREDKGHP 80
             E   HP
Sbjct: 184 MVEVSNHP 191


>gnl|CDD|36452 KOG1238, KOG1238, KOG1238, Glucose dehydrogenase/choline
          dehydrogenase/mandelonitrile lyase (GMC oxidoreductase
          family) [General function prediction only].
          Length = 623

 Score = 35.7 bits (82), Expect = 0.033
 Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 13 FEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILE 46
            YD +++G G AG   A R  + NP+ SV++LE
Sbjct: 56 SSYDYIVVGGGTAGCVLAARLSE-NPNWSVLLLE 88


>gnl|CDD|32458 COG2303, BetA, Choline dehydrogenase and related flavoproteins
          [Amino acid transport and metabolism].
          Length = 542

 Score = 35.9 bits (82), Expect = 0.034
 Identities = 23/65 (35%), Positives = 29/65 (44%), Gaps = 6/65 (9%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIGIDSLLPRW 73
          EYD VI+G+G AG   A R    +  LSV++L    E G       I  P     L+   
Sbjct: 7  EYDYVIVGSGSAGSVLAARLS--DAGLSVLVL----EAGGPDRRPLIQMPAAYAFLMNGP 60

Query: 74 REDKG 78
          R D G
Sbjct: 61 RYDWG 65


>gnl|CDD|31341 COG1146, COG1146, Ferredoxin [Energy production and conversion].
          Length = 68

 Score = 35.5 bits (81), Expect = 0.041
 Identities = 12/49 (24%), Positives = 22/49 (44%)

Query: 500 CPAGVYEWHQNNDENNYIIHAQNCIHCKACVIKDPNQNIEWNPPQGGDG 548
           CPAGV++  ++      +   + CI C  C +  P   I+ +  + G  
Sbjct: 20  CPAGVFDLGEDEGGKPVVARPEECIDCGLCELACPVGAIKVDILRPGKQ 68


>gnl|CDD|33187 COG3380, COG3380, Predicted NAD/FAD-dependent oxidoreductase
          [General function prediction only].
          Length = 331

 Score = 35.3 bits (81), Expect = 0.042
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 2/42 (4%)

Query: 16 DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILS 57
           + I+GAG AGLAAA   ++      V + EK   VG  + +
Sbjct: 3  SIAIVGAGIAGLAAAYALREAG--REVTVFEKGRGVGGRLAT 42


>gnl|CDD|32889 COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase
          [Amino acid transport and metabolism].
          Length = 421

 Score = 34.9 bits (80), Expect = 0.060
 Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 13/81 (16%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSA--------EVGAHILSGAIIDPI- 64
           +DV IIG G AGL   +  +Q     ++V   +SA        ++   +  G  +  I 
Sbjct: 2  NFDVAIIGGGLAGLTCGLALQQAGKRCAIVNRGQSALHFSSGSLDLLGRLPDGQAVTDIH 61

Query: 65 -GIDSLLPRWREDKGHPFHTV 84
           G+D+L    ++   HP+  V
Sbjct: 62 DGLDAL---RQQAPAHPYSLV 79


>gnl|CDD|144912 pfam01494, FAD_binding_3, FAD binding domain.  This domain is
          involved in FAD binding in a number of enzymes.
          Length = 349

 Score = 34.6 bits (80), Expect = 0.064
 Identities = 11/18 (61%), Positives = 14/18 (77%)

Query: 14 EYDVVIIGAGPAGLAAAI 31
          E DV+I+G GPAGL  A+
Sbjct: 1  ETDVLIVGGGPAGLMLAL 18


>gnl|CDD|31424 COG1231, COG1231, Monoamine oxidase [Amino acid transport and
          metabolism].
          Length = 450

 Score = 34.6 bits (79), Expect = 0.073
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 16 DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSG 58
          DV+I+GAG AGL+AA   K+      V ILE    VG   L+ 
Sbjct: 9  DVIIVGAGLAGLSAAYELKKAG--YQVQILEARDRVGGRSLTA 49


>gnl|CDD|110172 pfam01150, GDA1_CD39, GDA1/CD39 (nucleoside phosphatase) family. 
          Length = 424

 Score = 34.7 bits (80), Expect = 0.076
 Identities = 37/156 (23%), Positives = 58/156 (37%), Gaps = 36/156 (23%)

Query: 252 FVYHF-DDNLVSIGFVLHLDYR---NPWISAYEELQRFKTHPDIRIIFTEGERLEYGARV 307
            VY + D++L  +  V  ++      P +S++       T P+    +     LE+   V
Sbjct: 24  HVYKWKDEDLDLLQIVPLIEEFKKLEPGLSSFA------TKPEEAAKYLT-PLLEFAEEV 76

Query: 308 ISEGGWQSVPKLSFPGGSLIGCAAGFVNLLRIKGSHNAIISGMLAAEKIVERLSNGKKHD 367
           I +      P         +G  AG + LL              A+EKI+  L NG K  
Sbjct: 77  IPDSQLSETP-------VFLGATAG-MRLLP-----------EDASEKILRALRNGLKSL 117

Query: 368 DPIEIEDSWRQ----TQIGKDLWIIRNIKPLLSRFG 399
               ++D   +     + G   WI  N   LL RFG
Sbjct: 118 STFPVDDQGVRIIDGAEEGLYGWITVNY--LLGRFG 151


>gnl|CDD|176246 cd08286, FDH_like_ADH2, formaldehyde dehydrogenase (FDH)-like.
           This group is related to formaldehyde dehydrogenase
           (FDH), which  is a member of the zinc-dependent/medium
           chain alcohol dehydrogenase family.  This family uses
           NAD(H) as a cofactor in the interconversion of alcohols
           and aldehydes, or ketones. Another member is identified
           as a dihydroxyacetone reductase. Like the zinc-dependent
           alcohol dehydrogenases (ADH) of the medium chain alcohol
           dehydrogenase/reductase family (MDR), tetrameric FDHs
           have a catalytic zinc that resides between the catalytic
           and NAD(H)binding domains and a structural zinc in a
           lobe of the catalytic domain. Unlike ADH, where
           NAD(P)(H) acts as a cofactor, NADH in FDH is a tightly
           bound redox cofactor (similar to nicotinamide proteins).
           The medium chain alcohol dehydrogenase family (MDR) has
           a NAD(P)(H)-binding domain in a Rossmann fold of a
           beta-alpha form. The N-terminal region typically has an
           all-beta catalytic domain. These proteins typically form
           dimers (typically higher plants, mammals) or tetramers
           (yeast, bacteria), and have 2 tightly bound zinc atoms
           per subunit.
          Length = 345

 Score = 34.1 bits (79), Expect = 0.090
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 6/44 (13%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPHLSVVI------LEKSAEVGAH 54
           V I+GAGP GLAA +  +  +P   +++      LE + ++GA 
Sbjct: 170 VAIVGAGPVGLAALLTAQLYSPSKIIMVDLDDNRLEVAKKLGAT 213


>gnl|CDD|36490 KOG1276, KOG1276, KOG1276, Protoporphyrinogen oxidase [Coenzyme
          transport and metabolism].
          Length = 491

 Score = 34.2 bits (78), Expect = 0.100
 Identities = 14/42 (33%), Positives = 23/42 (54%)

Query: 16 DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILS 57
           V ++G G +GL AA    ++ P +++ + E S  VG  I S
Sbjct: 13 TVAVVGGGISGLCAAYYLARLGPDVTITLFEASPRVGGWIRS 54


>gnl|CDD|35620 KOG0399, KOG0399, KOG0399, Glutamate synthase [Amino acid transport
            and metabolism].
          Length = 2142

 Score = 34.2 bits (78), Expect = 0.10
 Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 2/42 (4%)

Query: 17   VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSG 58
            V IIG+GPAGLAAA +  +      V + E+S  VG  ++ G
Sbjct: 1788 VAIIGSGPAGLAAADQLNKAGHT--VTVYERSDRVGGLLMYG 1827


>gnl|CDD|176239 cd08278, benzyl_alcohol_DH, Benzyl alcohol dehydrogenase.  Benzyl
           alcohol dehydrogenase is similar to liver alcohol
           dehydrogenase, but has some amino acid substitutions
           near  the active site, which may determine the enzyme's
           specificity of oxidizing aromatic substrates.  Also
           known as aryl-alcohol dehydrogenases, they catalyze the
           conversion of an aromatic alcohol + NAD+ to an aromatic
           aldehyde + NADH + H+.  NAD(P)(H)-dependent
           oxidoreductases are the major enzymes in the
           interconversion of alcohols and aldehydes, or ketones.
           Alcohol dehydrogenase in the liver converts ethanol and
           NAD+ to acetaldehyde and NADH, while in yeast and some
           other microorganisms ADH catalyzes the conversion
           acetaldehyde to ethanol in alcoholic fermentation.   ADH
           is a member of the medium chain alcohol dehydrogenase
           family (MDR), which has a NAD(P)(H)-binding domain in a
           Rossmann fold of a beta-alpha form.  The NAD(H)-binding
           region is comprised of 2 structurally similar halves,
           each of which contacts a mononucleotide.  A GxGxxG motif
           after the first mononucleotide contact half allows the
           close contact of the coenzyme with the ADH backbone.
           The N-terminal catalytic domain has a distant homology
           to GroES.  These proteins typically form dimers
           (typically higher plants, mammals) or tetramers (yeast,
           bacteria), and have 2 tightly bound zinc atoms per
           subunit, a catalytic zinc at the active site and a
           structural zinc in a lobe of the catalytic domain.
           NAD(H) binding occurs in the cleft between the catalytic
            and coenzyme-binding domains at the active site, and
           coenzyme binding induces a conformational closing of
           this cleft. Coenzyme binding typically precedes and
           contributes to substrate binding.  In human  ADH
           catalysis, the zinc ion helps coordinate the alcohol,
           followed by deprotonation of  a histidine, the ribose of
           NAD, a serine, then the alcohol, which allows the
           transfer of a hydride to NAD+, creating NADH and a
           zinc-bound aldehyde or ketone. In yeast and some
           bacteria, the active site zinc binds an aldehyde,
           polarizing it, and leading to the reverse reaction.
          Length = 365

 Score = 34.0 bits (79), Expect = 0.12
 Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 17/60 (28%)

Query: 17  VVIIGAGPAGLAA-----AIRCKQINPHLSVVI------LEKSAEVGA-HILSGAIIDPI 64
           + + GAG  GLAA        C  I     + +      LE + E+GA H+++    D +
Sbjct: 190 IAVFGAGAVGLAAVMAAKIAGCTTI-----IAVDIVDSRLELAKELGATHVINPKEEDLV 244


>gnl|CDD|144651 pfam01134, GIDA, Glucose inhibited division protein A. 
          Length = 391

 Score = 33.7 bits (78), Expect = 0.14
 Identities = 9/20 (45%), Positives = 13/20 (65%)

Query: 16 DVVIIGAGPAGLAAAIRCKQ 35
          DV++IG G AG  AA+   +
Sbjct: 1  DVIVIGGGHAGCEAALAAAR 20


>gnl|CDD|33432 COG3634, AhpF, Alkyl hydroperoxide reductase, large subunit
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 520

 Score = 33.7 bits (77), Expect = 0.14
 Identities = 12/17 (70%), Positives = 15/17 (88%)

Query: 15  YDVVIIGAGPAGLAAAI 31
           YDV+++G GPAG AAAI
Sbjct: 212 YDVLVVGGGPAGAAAAI 228


>gnl|CDD|176223 cd08262, Zn_ADH8, Alcohol dehydrogenases of the MDR family.  The
           medium chain dehydrogenases/reductase
           (MDR)/zinc-dependent alcohol dehydrogenase-like family,
           which contains the zinc-dependent alcohol dehydrogenase
           (ADH-Zn) and related proteins, is a diverse group of
           proteins related to the first identified member, class I
           mammalian ADH.  MDRs display a broad range of activities
           and are distinguished from the smaller short chain
           dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
           acids of the MDR).  The MDR proteins have 2 domains: a
           C-terminal NAD(P)-binding Rossmann fold domain of a
           beta-alpha form and an N-terminal catalytic domain with
           distant homology to GroES.  The MDR group contains a
           host of activities, including the founding alcohol
           dehydrogenase (ADH), quinone reductase, sorbitol
           dehydrogenase, formaldehyde dehydrogenase, butanediol
           DH, ketose reductase, cinnamyl reductase, and numerous
           others. The zinc-dependent alcohol dehydrogenases (ADHs)
           catalyze the NAD(P)(H)-dependent interconversion of
           alcohols to aldehydes or ketones.  Active site zinc has
           a catalytic role, while structural zinc aids in
           stability.  ADH-like proteins typically form dimers
           (typically higher plants, mammals) or tetramers (yeast,
           bacteria), and generally have 2 tightly bound zinc atoms
           per subunit. The active site zinc is coordinated by a
           histidine, two cysteines, and a water molecule. The
           second zinc seems to play a structural role, affects
           subunit interactions, and is typically coordinated by 4
           cysteines.
          Length = 341

 Score = 33.4 bits (77), Expect = 0.18
 Identities = 19/66 (28%), Positives = 26/66 (39%), Gaps = 13/66 (19%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAE-------VGAHILSGAIIDPIGIDS 68
             ++IG GP GLA     K       +V  + S E       +GA I+    +DP   DS
Sbjct: 164 VALVIGCGPIGLAVIAALKARGVG-PIVASDFSPERRALALAMGADIV----VDP-AADS 217

Query: 69  LLPRWR 74
               W 
Sbjct: 218 PFAAWA 223


>gnl|CDD|33375 COG3573, COG3573, Predicted oxidoreductase [General function
          prediction only].
          Length = 552

 Score = 33.4 bits (76), Expect = 0.18
 Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 11 DVFEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAE 50
          D    DV+++GAG AGL AA   +  +    V+IL++  E
Sbjct: 2  DGLTADVIVVGAGLAGLVAA--AELADAGKRVLILDQEGE 39


>gnl|CDD|37011 KOG1800, KOG1800, KOG1800, Ferredoxin/adrenodoxin reductase
          [Nucleotide transport and metabolism].
          Length = 468

 Score = 33.1 bits (75), Expect = 0.22
 Identities = 15/46 (32%), Positives = 21/46 (45%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIID 62
          V I+G+GPAG   A    + +P+  V I EK       +  G   D
Sbjct: 23 VCIVGSGPAGFYTAQHLLKRHPNAHVDIFEKLPVPFGLVRYGVAPD 68


>gnl|CDD|39455 KOG4254, KOG4254, KOG4254, Phytoene desaturase [Coenzyme
          transport and metabolism].
          Length = 561

 Score = 32.7 bits (74), Expect = 0.25
 Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 2/48 (4%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAII 61
          EYD V+IG G  GL AA    +     SV +LE+   +G   ++  I+
Sbjct: 14 EYDAVVIGGGHNGLTAAAYLARYG--QSVAVLERRHVIGGAAVTEEIV 59


>gnl|CDD|176193 cd08231, MDR_TM0436_like, Hypothetical enzyme TM0436 resembles the
           zinc-dependent alcohol dehydrogenases (ADH).  This group
           contains the hypothetical TM0436 alcohol dehydrogenase
           from Thermotoga maritima,  proteins annotated as
           5-exo-alcohol dehydrogenase, and other members of the
           medium chain dehydrogenases/reductase
           (MDR)/zinc-dependent alcohol dehydrogenase-like family. 
           MDR, which contains the zinc-dependent alcohol
           dehydrogenase (ADH-Zn) and related proteins, is a
           diverse group of proteins related to the first
           identified member, class I mammalian ADH.  MDRs display
           a broad range of activities and are distinguished from
           the smaller short chain dehydrogenases (~ 250 amino
           acids vs. the ~ 350 amino acids of the MDR).  The MDR
           proteins have 2 domains: a C-terminal NAD(P)
           binding-Rossmann fold domain of a beta-alpha form and an
           N-terminal catalytic domain with distant homology to
           GroES.  The MDR group contains a host of activities,
           including the founding alcohol dehydrogenase (ADH),
           quinone reductase, sorbitol dehydrogenase, formaldehyde
           dehydrogenase, butanediol DH, ketose reductase, cinnamyl
           reductase, and numerous others. The zinc-dependent
           alcohol dehydrogenases (ADHs) catalyze the
           NAD(P)(H)-dependent interconversion of alcohols to
           aldehydes or ketones. Active site zinc has a catalytic
           role, while structural zinc aids in stability.
          Length = 361

 Score = 32.6 bits (75), Expect = 0.31
 Identities = 17/44 (38%), Positives = 20/44 (45%), Gaps = 6/44 (13%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPHLSVVI------LEKSAEVGAH 54
           VV+ GAGP GL A    K       +VI      LE + E GA 
Sbjct: 181 VVVQGAGPLGLYAVAAAKLAGARRVIVIDGSPERLELAREFGAD 224


>gnl|CDD|113586 pfam04820, Trp_halogenase, Tryptophan halogenase.  Tryptophan
          halogenase catalyses the chlorination of tryptophan to
          form 7-chlorotryptophan. This is the first step in the
          biosynthesis of pyrrolnitrin, an antibiotic with
          broad-spectrum anti-fungal activity. Tryptophan
          halogenase is NADH-dependent.
          Length = 457

 Score = 32.3 bits (74), Expect = 0.37
 Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)

Query: 16 DVVIIGAGPAG-LAAAIRCKQINPHLSVVILEKSAEVG 52
           +VI+G G AG +AAA   + +   L V ++E S E+G
Sbjct: 1  KIVIVGGGTAGWMAAAALARALKGGLDVTLVE-SEEIG 37


>gnl|CDD|37615 KOG2404, KOG2404, KOG2404, Fumarate reductase, flavoprotein
          subunit [Energy production and conversion].
          Length = 477

 Score = 32.3 bits (73), Expect = 0.40
 Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 2/36 (5%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
          VV+IG G AGL+A+     IN    V++LEK+  +G
Sbjct: 12 VVVIGGGLAGLSASNDI--INKGGIVILLEKAGSIG 45


>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
           (MDR)/zinc-dependent alcohol dehydrogenase-like family. 
           The medium chain reductase/dehydrogenases
           (MDR)/zinc-dependent alcohol dehydrogenase-like family,
           which contains the zinc-dependent alcohol dehydrogenase
           (ADH-Zn) and related proteins, is a diverse group of
           proteins related to the first identified member, class I
           mammalian ADH.  MDRs display a broad range of activities
           and are distinguished from the smaller short chain
           dehydrogenases  (~ 250 amino acids vs. the ~ 350 amino
           acids of the MDR).  The MDR proteins have 2 domains: a
           C-terminal NAD(P) binding-Rossmann fold domain of a
           beta-alpha form and an N-terminal catalytic domain with
           distant homology to GroES.  The MDR group contains a
           host of activities, including the founding alcohol
           dehydrogenase (ADH) , quinone reductase, sorbitol
           dehydrogenase, formaldehyde dehydrogenase, butanediol
           DH, ketose reductase, cinnamyl reductase, and numerous
           others. The zinc-dependent alcohol dehydrogenases (ADHs)
           catalyze the NAD(P)(H)-dependent interconversion of
           alcohols to aldehydes or ketones. ADH-like proteins
           typically form dimers (typically higher plants, mammals)
           or tetramers (yeast, bacteria), and generally have 2
           tightly bound zinc atoms per subunit, a catalytic zinc
           at the active site and a structural zinc in a lobe of
           the catalytic domain. The active site zinc is
           coordinated by a histidine, two cysteines, and a water
           molecule. The second zinc seems to play a structural
           role, affects subunit interactions, and is typically
           coordinated by 4 cysteines. Other MDR members have only
           a catalytic zinc, and some contain no coordinated zinc.
          Length = 271

 Score = 31.9 bits (73), Expect = 0.49
 Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 5/43 (11%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPHLSVVI-----LEKSAEVGAH 54
           V+++GAG  GL AA   K     + V       LE + E+GA 
Sbjct: 138 VLVLGAGGVGLLAAQLAKAAGARVIVTDRSDEKLELAKELGAD 180


>gnl|CDD|39059 KOG3855, KOG3855, KOG3855, Monooxygenase involved in coenzyme Q
          (ubiquinone) biosynthesis [Coenzyme transport and
          metabolism, Energy production and conversion].
          Length = 481

 Score = 31.5 bits (71), Expect = 0.59
 Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 8/45 (17%)

Query: 9  NKDVFEYDVVIIGAGPAG--LAAAIRCKQINPHL---SVVILEKS 48
          + D  +YDVVI+G GP G  LAAA+     NP      V++L+  
Sbjct: 31 STDTAKYDVVIVGGGPVGLALAAAL---GSNPPFQDKKVLLLDAG 72


>gnl|CDD|143965 pfam00208, ELFV_dehydrog, Glutamate/Leucine/Phenylalanine/Valine
           dehydrogenase. 
          Length = 237

 Score = 31.0 bits (71), Expect = 0.79
 Identities = 22/87 (25%), Positives = 30/87 (34%), Gaps = 21/87 (24%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHIL-----SGAIIDPIGID-SLL 70
           V + G G  G  AA               EK  E+GA ++     SG I DP GID   L
Sbjct: 35  VAVQGFGNVGSYAA---------------EKLLELGAKVVAVSDSSGYIYDPNGIDIEEL 79

Query: 71  PRWREDKGHPFHTVVKRDLYWFLNAQR 97
              +E+ G            +    + 
Sbjct: 80  LELKEEGGGRVVEYAGSGAEYISGEEL 106


>gnl|CDD|176244 cd08284, FDH_like_2, Glutathione-dependent formaldehyde
           dehydrogenase related proteins, child 2.
           Glutathione-dependent formaldehyde dehydrogenases (FDHs)
           are members of the zinc-dependent/medium chain alcohol
           dehydrogenase family. Formaldehyde dehydrogenase (FDH)
           is a member of the zinc-dependent/medium chain alcohol
           dehydrogenase family.  FDH converts formaldehyde and NAD
           to formate and NADH. The initial step in this process
           the spontaneous formation of a
           S-(hydroxymethyl)glutathione adduct from formaldehyde
           and glutathione, followed by FDH-mediated oxidation (and
           detoxification) of the adduct to S-formylglutathione. 
           These tetrameric FDHs have a catalytic zinc that resides
           between the catalytic and NAD(H)binding domains and a
           structural zinc in a lobe of the catalytic domain. The
           medium chain alcohol dehydrogenase family (MDR) has a
           NAD(P)(H)-binding domain in a Rossmann fold of a
           beta-alpha form. The N-terminal region typically has an
           all-beta catalytic domain. These proteins typically form
           dimers (typically higher plants, mammals) or tetramers
           (yeast, bacteria), and have 2 tightly bound zinc atoms
           per subunit.
          Length = 344

 Score = 31.1 bits (71), Expect = 0.82
 Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 6/54 (11%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPHLSVVI------LEKSAEVGAHILSGAIIDPI 64
           V +IG GP GL A +  + +       +      LE++A +GA  ++    +P+
Sbjct: 171 VAVIGCGPVGLCAVLSAQVLGAARVFAVDPVPERLERAAALGAEPINFEDAEPV 224


>gnl|CDD|34178 COG4529, COG4529, Uncharacterized protein conserved in bacteria
          [Function unknown].
          Length = 474

 Score = 31.1 bits (70), Expect = 0.93
 Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 1/42 (2%)

Query: 15 YDVVIIGAGPAGLAAAIR-CKQINPHLSVVILEKSAEVGAHI 55
          + V IIG G +G+  A    K   P   + I E     G  I
Sbjct: 2  FKVAIIGGGFSGIYMAAHLLKSPRPSGLISIFEPRPNFGQGI 43


>gnl|CDD|36550 KOG1336, KOG1336, KOG1336, Monodehydroascorbate/ferredoxin
           reductase [General function prediction only].
          Length = 478

 Score = 30.6 bits (69), Expect = 1.0
 Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 6/79 (7%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPH--LSVVILEKSAEVGAHILSGAII-DPIGIDSLLPRW 73
            VI+G GP G  A    +Q+     +++V  E         LS  ++    G+    P +
Sbjct: 77  FVIVGGGPGGAVAIETLRQVGFTERIALVKREYLLPYDRARLSKFLLTVGEGLAKRTPEF 136

Query: 74  REDKGHPFHT---VVKRDL 89
            ++KG        VVK DL
Sbjct: 137 YKEKGIELILGTSVVKADL 155


>gnl|CDD|31340 COG1145, NapF, Ferredoxin [Energy production and conversion].
          Length = 99

 Score = 30.7 bits (67), Expect = 1.1
 Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 1/51 (1%)

Query: 491 IYSGPSMRYCPAGVYEWHQNNDENNYI-IHAQNCIHCKACVIKDPNQNIEW 540
           I  G  ++ CP G  E  +       + I    C+ C AC+   P   +  
Sbjct: 32  IGCGLCVKVCPTGAIELIEEGLLLPEVVIDPDLCVLCGACLKVCPVDALSI 82


>gnl|CDD|39914 KOG4716, KOG4716, KOG4716, Thioredoxin reductase
          [Posttranslational modification, protein turnover,
          chaperones].
          Length = 503

 Score = 30.3 bits (68), Expect = 1.4
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 13 FEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
          ++YD+++IG G  GLA A     +   ++ +   K    G
Sbjct: 18 YDYDLIVIGGGSGGLACAKEAADLGAKVACLDFVKPTPQG 57


>gnl|CDD|31263 COG1063, Tdh, Threonine dehydrogenase and related Zn-dependent
           dehydrogenases [Amino acid transport and metabolism /
           General function prediction only].
          Length = 350

 Score = 29.6 bits (66), Expect = 2.0
 Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 9/76 (11%)

Query: 16  DVVIIGAGPAGLAAAIRCKQINPHLSVVI------LEKSAEVGAHILSGAIIDPIGIDSL 69
            VV++GAGP GL A    K +   + +V+      LE + E G    +  +++P   D+ 
Sbjct: 171 TVVVVGAGPIGLLAIALAKLLGASVVIVVDRSPERLELAKEAGG---ADVVVNPSEDDAG 227

Query: 70  LPRWREDKGHPFHTVV 85
                   G     V+
Sbjct: 228 AEILELTGGRGADVVI 243


>gnl|CDD|32579 COG2509, COG2509, Uncharacterized FAD-dependent dehydrogenases
          [General function prediction only].
          Length = 486

 Score = 29.5 bits (66), Expect = 2.3
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 14 EYDVVIIGAGPAGLAAAIRC---KQINPHLSVVILEKSAEVGAHILSG 58
            DVVI+GAGPAGL AA       +  P L + +++   ++   +   
Sbjct: 18 ALDVVIVGAGPAGLFAAYELSGDARKVPILKIYVVDVGLDIEQRLCPK 65


>gnl|CDD|176181 cd05278, FDH_like, Formaldehyde dehydrogenases.  Formaldehyde
           dehydrogenase (FDH) is a member of the
           zinc-dependent/medium chain alcohol dehydrogenase
           family.  Formaldehyde dehydrogenase (aka ADH3) may be
           the ancestral form of alcohol dehydrogenase, which
           evolved to detoxify formaldehyde.  This CD contains
           glutathione dependant FDH, glutathione independent FDH,
           and related alcohol dehydrogenases. FDH converts
           formaldehyde and NAD(P) to formate and NAD(P)H. The
           initial step in this process the spontaneous formation
           of a S-(hydroxymethyl)glutathione adduct from
           formaldehyde and glutathione, followed by FDH-mediated
           oxidation (and detoxification) of the adduct to
           S-formylglutathione. Unlike typical FDH, Pseudomonas
           putida aldehyde-dismutating FDH (PFDH) is
           glutathione-independent. The medium chain alcohol
           dehydrogenase family (MDR) have a NAD(P)(H)-binding
           domain in a Rossmann fold of a beta-alpha form. The
           N-terminal region typically has an all-beta catalytic
           domain. These proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and have 2 tightly bound zinc atoms per subunit.
          Length = 347

 Score = 29.6 bits (67), Expect = 2.3
 Identities = 9/28 (32%), Positives = 14/28 (50%)

Query: 17  VVIIGAGPAGLAAAIRCKQINPHLSVVI 44
           V +IGAGP GL A    + +     + +
Sbjct: 171 VAVIGAGPVGLCAVAGARLLGAARIIAV 198


>gnl|CDD|35522 KOG0301, KOG0301, KOG0301, Phospholipase A2-activating protein
           (contains WD40 repeats) [Lipid transport and
           metabolism].
          Length = 745

 Score = 29.6 bits (66), Expect = 2.3
 Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 2/36 (5%)

Query: 404 LSLGLMD--IWIQKILGFSFLGTLKHHKMDSCSLEA 437
           L +G MD  I + K+     L TLK HK + CSL  
Sbjct: 74  LVVGGMDTTIIVFKLSQAEPLYTLKGHKSNVCSLSI 109


>gnl|CDD|31444 COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy
          production and conversion].
          Length = 405

 Score = 29.4 bits (66), Expect = 2.5
 Identities = 10/31 (32%), Positives = 20/31 (64%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEK 47
          +VI+G G  GL+AA R  +  P + + ++++
Sbjct: 6  IVILGGGFGGLSAAKRLARKLPDVEITLVDR 36



 Score = 27.9 bits (62), Expect = 8.1
 Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 11/50 (22%)

Query: 16  DVVIIGAGPAG--LAAAIR---------CKQINPHLSVVILEKSAEVGAH 54
            +VI+G GP G  LA  +           +     L V+++E    +   
Sbjct: 157 TIVIVGGGPTGVELAGELAERLHRLLKKFRVDPSELRVILVEAGPRILPM 206


>gnl|CDD|30629 COG0281, SfcA, Malic enzyme [Energy production and conversion].
          Length = 432

 Score = 29.4 bits (66), Expect = 2.9
 Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)

Query: 1   MNSCDILHNKDVFEYDVVIIGAGPAGLAAA 30
           +N+  +   K + +  +VI GAG AG+A A
Sbjct: 187 LNALKLT-GKKLKDQKIVINGAGAAGIAIA 215


>gnl|CDD|30794 COG0445, GidA, NAD/FAD-utilizing enzyme apparently involved in
          cell division [Cell division and chromosome
          partitioning].
          Length = 621

 Score = 29.4 bits (66), Expect = 3.0
 Identities = 11/17 (64%), Positives = 14/17 (82%)

Query: 14 EYDVVIIGAGPAGLAAA 30
          EYDV++IG G AG+ AA
Sbjct: 4  EYDVIVIGGGHAGVEAA 20


>gnl|CDD|31338 COG1143, NuoI, Formate hydrogenlyase subunit 6/NADH:ubiquinone
           oxidoreductase 23 kD subunit (chain I) [Energy
           production and conversion].
          Length = 172

 Score = 29.2 bits (65), Expect = 3.1
 Identities = 10/38 (26%), Positives = 13/38 (34%), Gaps = 7/38 (18%)

Query: 500 CPAG--VYEWHQNNDENN-----YIIHAQNCIHCKACV 530
           CPA     E  +   +         I+   CI C  CV
Sbjct: 67  CPANAITMETAERKVDGRKKPKRPDINLGRCIFCGLCV 104


>gnl|CDD|133453 cd05311, NAD_bind_2_malic_enz, NAD(P) binding domain of malic
          enzyme (ME), subgroup 2.  Malic enzyme (ME), a member
          of the amino acid dehydrogenase (DH)-like domain
          family, catalyzes the oxidative decarboxylation of
          L-malate to pyruvate in the presence of cations
          (typically  Mg++ or Mn++) with the concomitant
          reduction of cofactor NAD+ or NADP+.  ME has been found
          in all organisms, and plays important roles in diverse
          metabolic pathways such as photosynthesis and
          lipogenesis. This enzyme generally forms homotetramers.
          The conversion of malate to pyruvate by ME typically
          involves oxidation of malate to produce oxaloacetate,
          followed by decarboxylation of oxaloacetate to produce
          pyruvate and CO2.  This subfamily consists primarily of
          archaeal and bacterial ME.  Amino acid DH-like
          NAD(P)-binding domains are members of the Rossmann fold
          superfamily and include glutamate, leucine, and
          phenylalanine DHs, methylene tetrahydrofolate DH,
          methylene-tetrahydromethanopterin DH,
          methylene-tetrahydropholate DH/cyclohydrolase,
          Shikimate DH-like proteins, malate oxidoreductases, and
          glutamyl tRNA reductase. Amino acid DHs catalyze the
          deamination of amino acids to keto acids with NAD(P)+
          as a cofactor. The NAD(P)-binding Rossmann fold
          superfamily includes a wide variety of protein families
          including NAD(P)- binding domains of alcohol DHs,
          tyrosine-dependent oxidoreductases,
          glyceraldehyde-3-phosphate DH, lactate/malate DHs,
          formate/glycerate DHs, siroheme synthases,
          6-phosphogluconate DH, amino acid DHs, repressor rex,
          NAD-binding potassium channel  domain, CoA-binding, and
          ornithine cyclodeaminase-like domains. These domains
          have an alpha-beta-alpha configuration. NAD binding
          involves numerous hydrogen and van der Waals contacts.
          Length = 226

 Score = 29.2 bits (66), Expect = 3.3
 Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 1/30 (3%)

Query: 1  MNSCDILHNKDVFEYDVVIIGAGPAGLAAA 30
          +N+  ++  K + E  +VI GAG AG+A A
Sbjct: 13 LNALKLV-GKKIEEVKIVINGAGAAGIAIA 41


>gnl|CDD|176195 cd08233, butanediol_DH_like, (2R,3R)-2,3-butanediol dehydrogenase. 
           (2R,3R)-2,3-butanediol dehydrogenase, a zinc-dependent
           medium chain alcohol dehydrogenase, catalyzes the
           NAD(+)-dependent oxidation of (2R,3R)-2,3-butanediol and
           meso-butanediol to acetoin. BDH functions as a
           homodimer.  NAD(P)(H)-dependent oxidoreductases are the
           major enzymes in the interconversion of alcohols and
           aldehydes, or ketones.  The medium chain alcohol
           dehydrogenase family (MDR) have a NAD(P)(H)-binding
           domain in a Rossmann fold of a beta-alpha form. The
           N-terminal region typically has an all-beta catalytic
           domain. These proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and have 2 tightly bound zinc atoms per subunit.
           Sorbitol and aldose reductase are NAD(+) binding
           proteins of the polyol pathway, which interconverts
           glucose and fructose. Sorbitol dehydrogenase is
           tetrameric and has a single catalytic zinc per subunit.
          Length = 351

 Score = 29.0 bits (66), Expect = 3.5
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 20/63 (31%)

Query: 17  VVIIGAGPAGLAAAI-----RCKQINPHLSVVI------LEKSAEVGAHILSGAIIDPIG 65
            +++GAGP GL   +        +I     +V        E + E+GA I    ++DP  
Sbjct: 176 ALVLGAGPIGLLTILALKAAGASKI-----IVSEPSEARRELAEELGATI----VLDPTE 226

Query: 66  IDS 68
           +D 
Sbjct: 227 VDV 229


>gnl|CDD|30923 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
          production and conversion].
          Length = 532

 Score = 29.1 bits (65), Expect = 3.6
 Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 2/34 (5%)

Query: 14 EYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEK 47
          E+DV++IG G  G   A         L V ++EK
Sbjct: 12 EFDVIVIGGGITGAGIARDA--AGRGLKVALVEK 43


>gnl|CDD|176188 cd05285, sorbitol_DH, Sorbitol dehydrogenase.  Sorbitol and aldose
           reductase are NAD(+) binding proteins of the polyol
           pathway, which interconverts glucose and fructose.
           Sorbitol dehydrogenase is tetrameric and has a single
           catalytic zinc per subunit. Aldose reductase catalyzes
           the NADP(H)-dependent conversion of glucose to sorbital,
           and SDH uses NAD(H) in the conversion of sorbitol to
           fructose.  NAD(P)(H)-dependent oxidoreductases are the
           major enzymes in the interconversion of alcohols and
           aldehydes, or ketones. The medium chain alcohol
           dehydrogenase family (MDR) have a NAD(P)(H)-binding
           domain in a Rossmann fold of a beta-alpha form. The
           N-terminal region typically has an all-beta catalytic
           domain. These proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and have 2 tightly bound zinc atoms per subunit.
          Length = 343

 Score = 29.0 bits (66), Expect = 3.9
 Identities = 9/18 (50%), Positives = 11/18 (61%)

Query: 17  VVIIGAGPAGLAAAIRCK 34
           V++ GAGP GL  A   K
Sbjct: 166 VLVFGAGPIGLLTAAVAK 183


>gnl|CDD|37825 KOG2614, KOG2614, KOG2614, Kynurenine 3-monooxygenase and related
          flavoprotein monooxygenases [Energy production and
          conversion, General function prediction only].
          Length = 420

 Score = 28.8 bits (64), Expect = 4.1
 Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)

Query: 16 DVVIIGAGPAGLAAAIRCKQINPHLSVVILEKS 48
           VVI+G G  GLA A+   +    + VV+LE  
Sbjct: 4  KVVIVGGGIVGLATALALHRKG--IDVVVLESR 34


>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family.  This
           group contains members identified as related to
           zinc-dependent alcohol dehydrogenase and other members
           of the MDR family. The medium chain
           dehydrogenases/reductase (MDR)/zinc-dependent alcohol
           dehydrogenase-like family, which contains the
           zinc-dependent alcohol dehydrogenase (ADH-Zn) and
           related proteins, is a diverse group of proteins related
           to the first identified member, class I mammalian ADH.
           MDRs display a broad range of activities and are
           distinguished from the smaller short chain
           dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
           acids of the MDR).  The MDR proteins have 2 domains: a
           C-terminal NAD(P)-binding Rossmann fold domain of a
           beta-alpha form and an N-terminal catalytic domain with
           distant homology to GroES.  The MDR group includes
           various activities, including the founding alcohol
           dehydrogenase (ADH), quinone reductase, sorbitol
           dehydrogenase, formaldehyde dehydrogenase, butanediol
           DH, ketose reductase, cinnamyl reductase, and numerous
           others. The zinc-dependent alcohol dehydrogenases (ADHs)
           catalyze the NAD(P)(H)-dependent interconversion of
           alcohols to aldehydes or ketones. Active site zinc has a
           catalytic role, while structural zinc aids in stability.
            ADH-like proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and generally have 2 tightly bound zinc atoms per
           subunit. The active site zinc is coordinated by a
           histidine, two cysteines, and a water molecule. The
           second zinc seems to play a structural role, affects
           subunit interactions, and is typically coordinated by 4
           cysteines.
          Length = 337

 Score = 28.7 bits (65), Expect = 4.3
 Identities = 7/15 (46%), Positives = 10/15 (66%)

Query: 17  VVIIGAGPAGLAAAI 31
           V+++GAGP GL    
Sbjct: 163 VLVVGAGPIGLGVIQ 177


>gnl|CDD|33289 COG3486, IucD, Lysine/ornithine N-monooxygenase [Secondary
          metabolites biosynthesis, transport, and catabolism].
          Length = 436

 Score = 28.7 bits (64), Expect = 4.4
 Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 5/42 (11%)

Query: 15 YDVVIIGAGPAGLAAAIRCKQINPH--LSVVILEKSAEVGAH 54
           D++ IG GP  L+ A     +  H  L  + LE+  +   H
Sbjct: 6  LDLIGIGIGPFNLSLAA---LLEEHSGLKSLFLERKPDFSWH 44


>gnl|CDD|176197 cd08235, iditol_2_DH_like, L-iditol 2-dehydrogenase.  Putative
           L-iditol 2-dehydrogenase based on annotation of some
           members in this subgroup.  L-iditol 2-dehydrogenase
           catalyzes the NAD+-dependent conversion of L-iditol to
           L-sorbose in fructose and mannose metabolism. This
           enzyme is related to sorbitol dehydrogenase, alcohol
           dehydrogenase, and other medium chain
           dehydrogenase/reductases. The zinc-dependent alcohol
           dehydrogenase (ADH-Zn)-like family of proteins is a
           diverse group of proteins related to the first
           identified member, class I mammalian ADH.  This group is
           also called the medium chain dehydrogenases/reductase
           family (MDR) to highlight its broad range of activities
           and to distinguish from the smaller short chain
           dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
           acids of the MDR).  The MDR proteins have 2 domains: a
           C-terminal NAD(P) binding-Rossmann fold domain of a
           beta-alpha form and an N-terminal GroES-like catalytic
           domain.  The MDR group contains a host of activities,
           including the founding alcohol dehydrogenase (ADH),
           quinone reductase, sorbitol dehydrogenase, formaldehyde
           dehydrogenase, butanediol DH, ketose reductase, cinnamyl
           reductase, and numerous others. The zinc-dependent
           alcohol  dehydrogenases (ADHs) catalyze the
           NAD(P)(H)-dependent interconversion of alcohols to
           aldehydes or ketones.  Active site zinc has a catalytic
           role, while structural zinc aids in stability.  ADH-like
           proteins  typically form dimers (typically higher
           plants, mammals) or tetramers (yeast, bacteria), and
           generally have 2 tightly bound zinc atoms per subunit.
           The active site zinc is coordinated by a histidine, two
           cysteines, and a water molecule. The second zinc seems
           to play a structural role, affects subunit interactions,
           and is typically coordinated by 4 cysteines.
          Length = 343

 Score = 28.7 bits (65), Expect = 4.6
 Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 18/62 (29%)

Query: 16  DVVIIGAGPAGL----------AAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIG 65
            V++IGAGP GL          A  +    +N       LE + ++GA       ID   
Sbjct: 168 TVLVIGAGPIGLLHAMLAKASGARKVIVSDLNEFR----LEFAKKLGADY----TIDAAE 219

Query: 66  ID 67
            D
Sbjct: 220 ED 221


>gnl|CDD|144743 pfam01262, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
          domain.  This family now also contains the lysine
          2-oxoglutarate reductases.
          Length = 150

 Score = 28.7 bits (65), Expect = 4.8
 Identities = 14/35 (40%), Positives = 17/35 (48%), Gaps = 2/35 (5%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEV 51
          VV+IG G  GL AA   K +     V IL+   E 
Sbjct: 23 VVVIGGGVVGLGAAATAKGLG--APVTILDVRPER 55


>gnl|CDD|33157 COG3349, COG3349, Uncharacterized conserved protein [Function
          unknown].
          Length = 485

 Score = 28.4 bits (63), Expect = 5.2
 Identities = 16/49 (32%), Positives = 19/49 (38%), Gaps = 4/49 (8%)

Query: 17 VVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVGAHILSGAIIDPIG 65
          V I GAG AGLAAA           V + E    +G      +  D  G
Sbjct: 3  VAIAGAGLAGLAAAYELADAG--YDVTLYEARDRLGG--KVASWRDSDG 47


>gnl|CDD|37522 KOG2311, KOG2311, KOG2311, NAD/FAD-utilizing protein possibly
          involved in translation [Translation, ribosomal
          structure and biogenesis].
          Length = 679

 Score = 28.4 bits (63), Expect = 5.4
 Identities = 13/22 (59%), Positives = 14/22 (63%), Gaps = 3/22 (13%)

Query: 15 YDVVIIGAGPAGL---AAAIRC 33
          YDVV+IG G AG    AAA R 
Sbjct: 29 YDVVVIGGGHAGCEAAAAAARL 50


>gnl|CDD|37614 KOG2403, KOG2403, KOG2403, Succinate dehydrogenase, flavoprotein
           subunit [Energy production and conversion].
          Length = 642

 Score = 28.0 bits (62), Expect = 6.0
 Identities = 31/106 (29%), Positives = 45/106 (42%), Gaps = 13/106 (12%)

Query: 14  EYDVVIIGAGPAGLAAAIRCKQINPHLSVVI-LEK--SAEVGAHILSGAIIDPIGIDSLL 70
            YD V++GAG AGL AA    ++    +V+  L    S  V A     A +  +G D+  
Sbjct: 55  TYDAVVVGAGGAGLRAARGLAELGEKTAVITKLFPTRSHTVAAQGGINAALGNMGNDN-- 112

Query: 71  PRWREDKGHPFHTVVKRDLYWFLNAQRSIQIPHFCLPDFMDNKEHY 116
             WR    H + TV   D   +L  Q +I       P  +   E+Y
Sbjct: 113 --WRW---HMYDTVKGSD---WLGDQDAIHYMCREAPKAVIELENY 150


>gnl|CDD|35626 KOG0405, KOG0405, KOG0405, Pyridine nucleotide-disulphide
          oxidoreductase [Secondary metabolites biosynthesis,
          transport and catabolism].
          Length = 478

 Score = 28.4 bits (63), Expect = 6.2
 Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 2/42 (4%)

Query: 11 DVFEYDVVIIGAGPAGLAAAIRCKQINPHLSVVILEKSAEVG 52
          DV ++D ++IG G  G+A+A R         V + E    +G
Sbjct: 17 DVKDFDYLVIGGGSGGVASARRAASHG--AKVALCELPFGLG 56


>gnl|CDD|176218 cd08256, Zn_ADH2, Alcohol dehydrogenases of the MDR family.  This
           group has the characteristic catalytic and structural
           zinc-binding sites of the zinc-dependent alcohol
           dehydrogenases of the MDR family. The medium chain
           dehydrogenases/reductase (MDR)/zinc-dependent alcohol
           dehydrogenase-like family, which contains the
           zinc-dependent alcohol dehydrogenase (ADH-Zn) and
           related proteins, is a diverse group of proteins related
           to the first identified member, class I mammalian ADH.
           MDRs display a broad range of activities and are
           distinguished from the smaller short chain
           dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
           acids of the MDR).  The MDR proteins have 2 domains: a
           C-terminal NAD(P)-binding Rossmann fold domain of a
           beta-alpha form and an N-terminal catalytic domain with
           distant homology to GroES.  The MDR group contains a
           host of activities, including the founding alcohol
           dehydrogenase (ADH), quinone reductase, sorbitol
           dehydrogenase, formaldehyde dehydrogenase, butanediol
           DH, ketose reductase, cinnamyl reductase, and numerous
           others. The zinc-dependent alcohol dehydrogenases (ADHs)
           catalyze the NAD(P)(H)-dependent interconversion of
           alcohols to aldehydes or ketones.  Active site zinc has
           a catalytic role, while structural zinc aids in
           stability.
          Length = 350

 Score = 28.1 bits (63), Expect = 6.6
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 10/51 (19%)

Query: 13  FEYDVVIIGAGPAGLA--AAIRCKQINPHLSVVI------LEKSAEVGAHI 55
           F+  VV+ GAGP GL    A R K  NP   +V+      L  + + GA +
Sbjct: 174 FDDVVVLAGAGPLGLGMIGAARLK--NPKKLIVLDLKDERLALARKFGADV 222


>gnl|CDD|176242 cd08282, PFDH_like, Pseudomonas putida aldehyde-dismutating
           formaldehyde dehydrogenase (PFDH).  Formaldehyde
           dehydrogenase (FDH) is a member of the
           zinc-dependent/medium chain alcohol dehydrogenase
           family.  Unlike typical FDH, Pseudomonas putida
           aldehyde-dismutating FDH (PFDH) is
           glutathione-independent.  PFDH converts 2 molecules of
           aldehydes to corresponding carboxylic acid and alcohol. 
           MDH family uses NAD(H) as a cofactor in the
           interconversion of alcohols and aldehydes, or ketones.
           Like the zinc-dependent alcohol dehydrogenases (ADH) of
           the medium chain alcohol dehydrogenase/reductase family
           (MDR), these tetrameric FDHs have a catalytic zinc that
           resides between the catalytic and NAD(H)binding domains
           and a structural zinc in a lobe of the catalytic domain.
           Unlike ADH, where NAD(P)(H) acts as a cofactor, NADH in
           FDH is a tightly bound redox cofactor (similar to
           nicotinamide proteins).  The medium chain alcohol
           dehydrogenase family (MDR) has a NAD(P)(H)-binding
           domain in a Rossmann fold of an beta-alpha form. The
           N-terminal region typically has an all-beta catalytic
           domain. These proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and have 2 tightly bound zinc atoms per subunit.
          Length = 375

 Score = 27.9 bits (63), Expect = 7.7
 Identities = 9/14 (64%), Positives = 10/14 (71%)

Query: 17  VVIIGAGPAGLAAA 30
           V + GAGP GL AA
Sbjct: 180 VAVFGAGPVGLMAA 193


>gnl|CDD|29750 cd01147, HemV-2, Metal binding protein HemV-2.  These proteins are
           predicted to function as initial receptors in ABC
           transport of metal ions.  They belong to the TroA
           superfamily of helical backbone metal receptor proteins
           that share a distinct fold and ligand binding mechanism.
            A typical TroA protein is comprised of two globular
           subdomains connected by a single helix and can bind the
           metal ion in the cleft between these domains. In
           addition, these proteins sometimes have a low complexity
           region containing a metal-binding histidine-rich motif
           (repetitive HDH sequence)..
          Length = 262

 Score = 27.6 bits (61), Expect = 9.2
 Identities = 13/65 (20%), Positives = 21/65 (32%), Gaps = 3/65 (4%)

Query: 481 KDLQKKSELRIYSGPSMRYCPAGVYEWHQNNDENNYIIHAQNCIHCKA---CVIKDPNQN 537
           KD+  + +  +Y G       AG+      + E   +    N              P Q 
Sbjct: 149 KDIPDEEKPTVYFGRIGTKGAAGLESGLAGSIEVFELAGGINVADGLGGGGLKEVSPEQI 208

Query: 538 IEWNP 542
           + WNP
Sbjct: 209 LLWNP 213


>gnl|CDD|31339 COG1144, COG1144, Pyruvate:ferredoxin oxidoreductase and related
           2-oxoacid:ferredoxin oxidoreductases, delta subunit
           [Energy production and conversion].
          Length = 91

 Score = 27.7 bits (61), Expect = 9.3
 Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 3/37 (8%)

Query: 517 IIHAQNCIHCKACVIKDPNQNIEWNPPQGGDGPHYVD 553
           ++    CI+CK C +  P   I       G     +D
Sbjct: 31  VVDEDKCINCKLCWLYCPEPAILEEE---GGYKVRID 64


  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
   0.322    0.141    0.446 

Gapped
Lambda     K      H
   0.267   0.0823    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 7,314,504
Number of extensions: 409761
Number of successful extensions: 1089
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1077
Number of HSP's successfully gapped: 96
Length of query: 554
Length of database: 6,263,737
Length adjustment: 99
Effective length of query: 455
Effective length of database: 4,124,446
Effective search space: 1876622930
Effective search space used: 1876622930
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 (21.9 bits)
S2: 60 (26.7 bits)