RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 023853
(276 letters)
>gnl|CDD|215058 PLN00106, PLN00106, malate dehydrogenase.
Length = 323
Score = 523 bits (1350), Expect = 0.0
Identities = 198/259 (76%), Positives = 218/259 (84%), Gaps = 1/259 (0%)
Query: 12 VDSRA-VRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAK 70
+++ A VRGFLG QL DAL G D+VIIPAGVPRKPGMTRDDLFNINAGIVKTLCE +AK
Sbjct: 65 INTPAQVRGFLGDDQLGDALKGADLVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEAVAK 124
Query: 71 CCPKAIVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPR 130
CP A+VN+ISNPVNSTVPIAAEV KK G YDPK+L GVT LDVVRANTFVAE GLDP
Sbjct: 125 HCPNALVNIISNPVNSTVPIAAEVLKKAGVYDPKKLFGVTTLDVVRANTFVAEKKGLDPA 184
Query: 131 EVDVPVVGGHAGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLS 190
+VDVPVVGGHAG+TILPLLSQ P S T EI+ LT RIQNGGTEVVEAK GAGSATLS
Sbjct: 185 DVDVPVVGGHAGITILPLLSQATPKVSFTDEEIEALTKRIQNGGTEVVEAKAGAGSATLS 244
Query: 191 MAYAAAKFADACLRGLRGDAGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSLGPLNE 250
MAYAAA+FADACLRGL G+A V+EC+YV S VTELPFFASKVRLGR G+EE+ LGPL+E
Sbjct: 245 MAYAAARFADACLRGLNGEADVVECSYVQSEVTELPFFASKVRLGRNGVEEVLGLGPLSE 304
Query: 251 YERAGLEKAKKELAGSIQK 269
YE+ GLE K EL SI+K
Sbjct: 305 YEQKGLEALKPELKASIEK 323
>gnl|CDD|133422 cd01337, MDH_glyoxysomal_mitochondrial, Glyoxysomal and
mitochondrial malate dehydrogenases. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. Members of this subfamily are
localized to the glycosome and mitochondria. MDHs are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 310
Score = 468 bits (1208), Expect = e-169
Identities = 176/264 (66%), Positives = 212/264 (80%), Gaps = 1/264 (0%)
Query: 12 VDSRA-VRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAK 70
+++ A V G+LG ++L+ AL G D+V+IPAGVPRKPGMTRDDLFNINAGIV+ L +AK
Sbjct: 47 INTPAKVTGYLGPEELKKALKGADVVVIPAGVPRKPGMTRDDLFNINAGIVRDLATAVAK 106
Query: 71 CCPKAIVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPR 130
CPKA++ +ISNPVNSTVPIAAEV KK G YDPKRL GVT LDVVRANTFVAE+LGLDP
Sbjct: 107 ACPKALILIISNPVNSTVPIAAEVLKKAGVYDPKRLFGVTTLDVVRANTFVAELLGLDPA 166
Query: 131 EVDVPVVGGHAGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLS 190
+V+VPV+GGH+GVTILPLLSQ +P + EI+ LT RIQ GG EVV+AK GAGSATLS
Sbjct: 167 KVNVPVIGGHSGVTILPLLSQCQPPFTFDQEEIEALTHRIQFGGDEVVKAKAGAGSATLS 226
Query: 191 MAYAAAKFADACLRGLRGDAGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSLGPLNE 250
MAYA A+FA++ LRGL+G+ GVIECAYV S VTE PFFA+ V LG+ G+E+ LG LN+
Sbjct: 227 MAYAGARFANSLLRGLKGEKGVIECAYVESDVTEAPFFATPVELGKNGVEKNLGLGKLND 286
Query: 251 YERAGLEKAKKELAGSIQKGVSFV 274
YE+ LE A EL +I+KGV FV
Sbjct: 287 YEKKLLEAALPELKKNIEKGVDFV 310
>gnl|CDD|235340 PRK05086, PRK05086, malate dehydrogenase; Provisional.
Length = 312
Score = 353 bits (909), Expect = e-123
Identities = 147/260 (56%), Positives = 178/260 (68%), Gaps = 2/260 (0%)
Query: 17 VRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAI 76
++GF G+ AL G D+V+I AGV RKPGM R DLFN+NAGIVK L E +AK CPKA
Sbjct: 55 IKGFSGED-PTPALEGADVVLISAGVARKPGMDRSDLFNVNAGIVKNLVEKVAKTCPKAC 113
Query: 77 VNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREVDVPV 136
+ +I+NPVN+TV IAAEV KK G YD +L GVT LDV+R+ TFVAE+ G P EV+VPV
Sbjct: 114 IGIITNPVNTTVAIAAEVLKKAGVYDKNKLFGVTTLDVIRSETFVAELKGKQPGEVEVPV 173
Query: 137 VGGHAGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAA 196
+GGH+GVTILPLLSQV P S T E+ LT RIQN GTEVVEAK G GSATLSM AAA
Sbjct: 174 IGGHSGVTILPLLSQV-PGVSFTEQEVADLTKRIQNAGTEVVEAKAGGGSATLSMGQAAA 232
Query: 197 KFADACLRGLRGDAGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAGL 256
+F + +R L+G+ GV+ECAYV FFA V LG+ G+EE +G L+ +E+ L
Sbjct: 233 RFGLSLVRALQGEQGVVECAYVEGDGKYARFFAQPVLLGKNGVEERLPIGTLSAFEQNAL 292
Query: 257 EKAKKELAGSIQKGVSFVRK 276
E L I G FV K
Sbjct: 293 EGMLDTLKKDIALGEEFVNK 312
>gnl|CDD|130833 TIGR01772, MDH_euk_gproteo, malate dehydrogenase, NAD-dependent.
This model represents the NAD-dependent malate
dehydrogenase found in eukaryotes and certain gamma
proteobacteria. The enzyme is involved in the citric
acid cycle as well as the glyoxalate cycle. Several
isoforms exidt in eukaryotes. In S. cereviseae, for
example, there are cytoplasmic, mitochondrial and
peroxisomal forms. Although malate dehydrogenases have
in some cases been mistaken for lactate dehydrogenases
due to the similarity of these two substrates and the
apparent ease with which evolution can toggle these
activities, critical residues have been identified which
can discriminate between the two activities. At the time
of the creation of this model no hits above the trusted
cutoff contained critical residues typical of lactate
dehydrogenases [Energy metabolism, TCA cycle].
Length = 312
Score = 352 bits (905), Expect = e-123
Identities = 154/262 (58%), Positives = 197/262 (75%), Gaps = 1/262 (0%)
Query: 16 AVRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKA 75
+V+GF G++ LE+AL G D+V+IPAGVPRKPGMTRDDLFN+NAGIVK L +A+ CPKA
Sbjct: 51 SVKGFSGEEGLENALKGADVVVIPAGVPRKPGMTRDDLFNVNAGIVKDLVAAVAESCPKA 110
Query: 76 IVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREVDVP 135
++ +I+NPVNSTVPIAAEV KK G YDP +L GVT LD+VRANTFVAE+ G DP EV+VP
Sbjct: 111 MILVITNPVNSTVPIAAEVLKKKGVYDPNKLFGVTTLDIVRANTFVAELKGKDPMEVNVP 170
Query: 136 VVGGHAGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAA 195
V+GGH+G TI+PL+SQ T +++ L RIQN GTEVV+AK GAGSATLSMA+A
Sbjct: 171 VIGGHSGETIIPLISQCPGKVLFTEDQLEALIHRIQNAGTEVVKAKAGAGSATLSMAFAG 230
Query: 196 AKFADACLRGLRGDAGVIECAYVAS-TVTELPFFASKVRLGRAGIEEIYSLGPLNEYERA 254
A+F + +RGL+G+ GV+ECAYV S VTE FFA+ + LG+ G+E+ +G L+ +E
Sbjct: 231 ARFVLSLVRGLKGEEGVVECAYVESDGVTEATFFATPLLLGKNGVEKRLGIGKLSSFEEK 290
Query: 255 GLEKAKKELAGSIQKGVSFVRK 276
L A EL +I+KG FV
Sbjct: 291 MLNGALPELKKNIKKGEEFVAS 312
>gnl|CDD|240360 PTZ00325, PTZ00325, malate dehydrogenase; Provisional.
Length = 321
Score = 330 bits (847), Expect = e-114
Identities = 152/261 (58%), Positives = 192/261 (73%), Gaps = 3/261 (1%)
Query: 17 VRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAI 76
V G+ + E AL G D+V+I AGVPRKPGMTRDDLFN NA IV+ L +A PKAI
Sbjct: 61 VTGYADGELWEKALRGADLVLICAGVPRKPGMTRDDLFNTNAPIVRDLVAAVASSAPKAI 120
Query: 77 VNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREVDVPV 136
V ++SNPVNSTVPIAAE KK G YDP++L GVT LDVVRA FVAE LG++P +V+VPV
Sbjct: 121 VGIVSNPVNSTVPIAAETLKKAGVYDPRKLFGVTTLDVVRARKFVAEALGMNPYDVNVPV 180
Query: 137 VGGHAGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAA 196
VGGH+GVTI+PLLSQ SL +++ +T R+Q GG EVV+AK GAGSATLSMAYAAA
Sbjct: 181 VGGHSGVTIVPLLSQT--GLSLPEEQVEQITHRVQVGGDEVVKAKEGAGSATLSMAYAAA 238
Query: 197 KFADACLRGLRGDAGVIECAYVASTVT-ELPFFASKVRLGRAGIEEIYSLGPLNEYERAG 255
+++ + L+ LRGD G++ECA+V S + E PFF+S V LG+ G+E + +GPLN YE
Sbjct: 239 EWSTSVLKALRGDKGIVECAFVESDMRPECPFFSSPVELGKEGVERVLPIGPLNAYEEEL 298
Query: 256 LEKAKKELAGSIQKGVSFVRK 276
LE A +L +I+KG+ F RK
Sbjct: 299 LEAAVPDLKKNIEKGLEFARK 319
>gnl|CDD|223117 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 210 bits (538), Expect = 4e-67
Identities = 95/258 (36%), Positives = 138/258 (53%), Gaps = 20/258 (7%)
Query: 27 EDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNS 86
+ L G DIV+I AGVPRKPGMTR DL NA IVK + + IAK P AIV +++NPV+
Sbjct: 64 YEDLKGADIVVITAGVPRKPGMTRLDLLEKNAKIVKDIAKAIAKYAPDAIVLVVTNPVDI 123
Query: 87 TVPIAAEVFKKVGTYDPKRLLG-VTMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVTI 145
IA + R++G T+LD R TF+AE LG+ P++V V+G H G T+
Sbjct: 124 LTYIAMKFSGF----PKNRVIGSGTVLDSARFRTFLAEKLGVSPKDVHAYVIGEH-GDTM 178
Query: 146 LPLLSQV----KPSCSL----TPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAK 197
+PL SQ KP L T +++ L +R++N G E++EAK A A A+
Sbjct: 179 VPLWSQATVGGKPLEELLKEDTEEDLEELIERVRNAGAEIIEAKG--AGTYYGPAAALAR 236
Query: 198 FADACLRGLRGDAGVIECAYV-ASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAGL 256
+A LR + + Y+ E +F LG+ G+EEI L L++ E+ L
Sbjct: 237 MVEAILRDEK--RVLPVSVYLDGEYGVEDVYFGVPAVLGKNGVEEILEL-LLSDDEQEKL 293
Query: 257 EKAKKELAGSIQKGVSFV 274
+K+ +EL +I+ V
Sbjct: 294 DKSAEELKKNIELVKELV 311
>gnl|CDD|202437 pfam02866, Ldh_1_C, lactate/malate dehydrogenase, alpha/beta
C-terminal domain. L-lactate dehydrogenases are
metabolic enzymes which catalyze the conversion of
L-lactate to pyruvate, the last step in anaerobic
glycolysis. L-2-hydroxyisocaproate dehydrogenases are
also members of the family. Malate dehydrogenases
catalyze the interconversion of malate to oxaloacetate.
The enzyme participates in the citric acid cycle.
L-lactate dehydrogenase is also found as a lens
crystallin in bird and crocodile eyes.
Length = 173
Score = 184 bits (470), Expect = 9e-59
Identities = 81/177 (45%), Positives = 108/177 (61%), Gaps = 16/177 (9%)
Query: 110 TMLDVVRANTFVAEVLGLDPREVDVPVVGGHAG----------VTILPLLSQVKPSCSLT 159
T LD RA TF+AE G+DPR V+V V+G H+G VTI+PL+SQVK + T
Sbjct: 1 TTLDTARARTFLAEKFGVDPRSVNVYVIGEHSGTQFPDWSHAKVTIIPLISQVKENLKDT 60
Query: 160 PTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFADACLRGLRGD--AGVIECAY 217
E++ L +R+QN G EV+EAK AGS T SMAYAAA+ A A LRG G GV Y
Sbjct: 61 DWELEELIERVQNAGYEVIEAK--AGSTTYSMAYAAARIAKAILRGTGGVLSVGVYLDGY 118
Query: 218 VASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAGLEKAKKELAGSIQKGVSFV 274
+ +F+ V LG+ G+E++ + PLN++ER LEK+ EL I+KG +FV
Sbjct: 119 YG--SPDDIYFSVPVVLGKDGVEKVVEILPLNDFEREKLEKSAAELKKEIEKGFAFV 173
>gnl|CDD|133424 cd01339, LDH-like_MDH, L-lactate dehydrogenase-like malate
dehydrogenase proteins. Members of this subfamily have
an LDH-like structure and an MDH enzymatic activity.
Some members, like MJ0490 from Methanococcus jannaschii,
exhibit both MDH and LDH activities. Tetrameric MDHs,
including those from phototrophic bacteria, are more
similar to LDHs than to other MDHs. LDH catalyzes the
last step of glycolysis in which pyruvate is converted
to L-lactate. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate. The
LDH-like MDHs are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)-binding domains of
alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 300
Score = 146 bits (371), Expect = 2e-42
Identities = 84/250 (33%), Positives = 131/250 (52%), Gaps = 26/250 (10%)
Query: 30 LTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVP 89
+ G D+V+I AG+PRKPGM+RDDL NA IVK + E I K P AIV +++NP++
Sbjct: 64 IAGSDVVVITAGIPRKPGMSRDDLLGTNAKIVKEVAENIKKYAPNAIVIVVTNPLDVMT- 122
Query: 90 IAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVTILPL 148
V K + R++G+ +LD R F+AE LG+ ++V V+GGH G T++PL
Sbjct: 123 ---YVAYKASGFPRNRVIGMAGVLDSARFRYFIAEELGVSVKDVQAMVLGGH-GDTMVPL 178
Query: 149 LSQ-----VKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFADACL 203
+ + +T EID + +R +NGG E+V GSA + A A A+ +A L
Sbjct: 179 PRYSTVGGIPLTELITKEEIDEIVERTRNGGAEIVNLL-KTGSAYYAPAAAIAEMVEAIL 237
Query: 204 RGLRGDAGVIECA------YVASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAGLE 257
+ + V+ C+ Y + F V LG+ G+E+I L L + E+ +
Sbjct: 238 KDKK---RVLPCSAYLEGEYGIKDI----FVGVPVVLGKNGVEKIIEL-DLTDEEKEAFD 289
Query: 258 KAKKELAGSI 267
K+ + + I
Sbjct: 290 KSVESVKELI 299
>gnl|CDD|180477 PRK06223, PRK06223, malate dehydrogenase; Reviewed.
Length = 307
Score = 143 bits (363), Expect = 4e-41
Identities = 94/275 (34%), Positives = 146/275 (53%), Gaps = 35/275 (12%)
Query: 13 DSRAVRGF----LGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGI 68
++ V GF G ED + G D+V+I AGVPRKPGM+RDDL INA I+K + EGI
Sbjct: 48 EAAPVEGFDTKITGTNDYED-IAGSDVVVITAGVPRKPGMSRDDLLGINAKIMKDVAEGI 106
Query: 69 AKCCPKAIVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGL 127
K P AIV +++NPV++ +A K + R++G+ +LD R TF+AE L +
Sbjct: 107 KKYAPDAIVIVVTNPVDAMTYVA----LKESGFPKNRVIGMAGVLDSARFRTFIAEELNV 162
Query: 128 DPREVDVPVVGGHAGVTILPLLSQV----KPSCSLTPTE-IDYLTDRIQNGGTEVVEAKT 182
++V V+GGH G +++PL+ P L E +D + +R + GG E+V
Sbjct: 163 SVKDVTAFVLGGH-GDSMVPLVRYSTVGGIPLEDLLSKEKLDEIVERTRKGGAEIVGLL- 220
Query: 183 GAGSATLSMAYAAAKFADACLRGLRGDAG-VIEC-AY------VASTVTELPFFASKVRL 234
GSA + A + A+ +A L+ D V+ C AY V +P V+L
Sbjct: 221 KTGSAYYAPAASIAEMVEAILK----DKKRVLPCSAYLEGEYGVKDVYVGVP-----VKL 271
Query: 235 GRAGIEEIYSLGPLNEYERAGLEKAKKELAGSIQK 269
G+ G+E+I L L++ E+A +K+ + + I+
Sbjct: 272 GKNGVEKIIEL-ELDDEEKAAFDKSVEAVKKLIEA 305
>gnl|CDD|133419 cd00650, LDH_MDH_like, NAD-dependent, lactate dehydrogenase-like,
2-hydroxycarboxylate dehydrogenase family. Members of
this family include ubiquitous enzymes like L-lactate
dehydrogenases (LDH), L-2-hydroxyisocaproate
dehydrogenases, and some malate dehydrogenases (MDH).
LDH catalyzes the last step of glycolysis in which
pyruvate is converted to L-lactate. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. The LDH/MDH-like proteins are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 263
Score = 119 bits (301), Expect = 2e-32
Identities = 63/242 (26%), Positives = 101/242 (41%), Gaps = 51/242 (21%)
Query: 26 LEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVN 85
+A D+VII AGV RKPGM R DL N IVK + + I K P A + ++SNPV+
Sbjct: 64 PYEAFKDADVVIITAGVGRKPGMGRLDLLKRNVPIVKEIGDNIEKYSPDAWIIVVSNPVD 123
Query: 86 STVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVTI 145
I + + ++++G+ LD +R +AE LG+DP +V V ++G H G +
Sbjct: 124 ----IITYLVWRYSGLPKEKVIGLGTLDPIRFRRILAEKLGVDPDDVKVYILGEHGG-SQ 178
Query: 146 LPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFADACLRG 205
+P S V+ +A + A + L
Sbjct: 179 VPDWSTVR-------------------------------------IATSIADLIRSLLN- 200
Query: 206 LRGDAGVIECAYV----ASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAGLEKAKK 261
D G I V + + + +G+ G+EE + L ++E L+K+
Sbjct: 201 ---DEGEILPVGVRNNGQIGIPDDVVVSVPCIVGKNGVEEPIEV-GLTDFELEKLQKSAD 256
Query: 262 EL 263
L
Sbjct: 257 TL 258
>gnl|CDD|200963 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyze the conversion of L-lactate to pyruvate,
the last step in anaerobic glycolysis.
L-2-hydroxyisocaproate dehydrogenases are also members
of the family. Malate dehydrogenases catalyze the
interconversion of malate to oxaloacetate. The enzyme
participates in the citric acid cycle. L-lactate
dehydrogenase is also found as a lens crystallin in bird
and crocodile eyes. N-terminus (this family) is a
Rossmann NAD-binding fold. C-terminus is an unusual
alpha+beta fold.
Length = 142
Score = 115 bits (291), Expect = 2e-32
Identities = 39/82 (47%), Positives = 49/82 (59%), Gaps = 3/82 (3%)
Query: 27 EDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNS 86
+AL D+V+I AGVPRKPGMTR DL N NAGI K + IAK P AIV ++SNPV+
Sbjct: 64 YEALKDADVVVITAGVPRKPGMTRLDLLNRNAGIFKDIVPAIAKSAPDAIVLVVSNPVDI 123
Query: 87 TVPIAAEVFKKVGTYDPKRLLG 108
IA +V G + +
Sbjct: 124 LTYIAWKVS---GLPPERVIGS 142
>gnl|CDD|233562 TIGR01763, MalateDH_bact, malate dehydrogenase, NAD-dependent.
This enzyme converts malate into oxaloacetate in the
citric acid cycle. The critical residues which
discriminate malate dehydrogenase from lactate
dehydrogenase have been characterized , and have been
used to set the cutoffs for this model. Sequences
showing [aflimv][ap]R[rk]pgM[st] and [ltv][ilm]gGhgd
were kept above trusted, while those in which the
capitalized residues in the patterns were found to be Q,
E and E were kept below the noise cutoff. Some sequences
in the grey zone have been annotated as malate
dehydrogenases, but none have been characterized.
Phylogenetically, a clade of sequences from eukaryotes
such as Toxoplasma and Plasmodium which include a
characterized lactate dehydrogenase and show abiguous
critical residue patterns appears to be more closely
related to these bacterial sequences than other
eukaryotic sequences. These are relatively long branch
and have been excluded from the model. All other
sequences falling below trusted appear to be
phylogenetically outside of the clade including the
trusted hits. The annotation of Botryococcus braunii as
lactate dehydrogenase appears top be in error. This was
initially annotated as MDH by Swiss-Prot and then
changed. The rationale for either of these annotations
is not traceable [Energy metabolism, TCA cycle].
Length = 305
Score = 114 bits (286), Expect = 5e-30
Identities = 75/238 (31%), Positives = 129/238 (54%), Gaps = 18/238 (7%)
Query: 32 GMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVPIA 91
DIV+I AG+PRKPGM+R+DL ++NAGIV+ + I + P I+ ++SNP+++ +A
Sbjct: 69 NSDIVVITAGLPRKPGMSREDLLSMNAGIVREVTGRIMEHSPNPIIVVVSNPLDAMTYVA 128
Query: 92 AEVFKKVGTYDPKRLLGVT-MLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVTILPL-- 148
+ + +R++G +LD R TF+A LG+ ++V V+GGH G ++PL
Sbjct: 129 WQ----KSGFPKERVIGQAGVLDSARFRTFIAMELGVSVQDVTACVLGGH-GDAMVPLVR 183
Query: 149 ---LSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFADACLRG 205
++ + + ++ I + +R + GG E+V GSA + A + + +A L+
Sbjct: 184 YSTVAGIPVADLISAERIAEIVERTRKGGGEIVNL-LKQGSAYYAPAASVVEMVEAILKD 242
Query: 206 LRGDAGVIEC-AYVASTV-TELPFFASKVRLGRAGIEEIYSLGPLNEYERAGLEKAKK 261
+ V+ C AY+ + + V LG+ G+E IY L L++ E A L K+ K
Sbjct: 243 RK---RVLPCAAYLDGQYGIDGIYVGVPVILGKNGVEHIYEL-KLDQSELALLNKSAK 296
>gnl|CDD|133418 cd00300, LDH_like, L-lactate dehydrogenase-like enzymes. Members
of this subfamily are tetrameric NAD-dependent
2-hydroxycarboxylate dehydrogenases including LDHs,
L-2-hydroxyisocaproate dehydrogenases (L-HicDH), and
LDH-like malate dehydrogenases (MDH). Dehydrogenases
catalyze the conversion of carbonyl compounds to
alcohols or amino acids. LDHs catalyze the last step of
glycolysis in which pyruvate is converted to L-lactate.
Vertebrate LDHs are non-allosteric, but some bacterial
LDHs are activated by an allosteric effector such as
fructose-1,6-bisphosphate. L-HicDH catalyzes the
conversion of a variety of 2-oxo carboxylic acids with
medium-sized aliphatic or aromatic side chains. MDH is
one of the key enzymes in the citric acid cycle,
facilitating both the conversion of malate to
oxaloacetate and replenishing levels of oxalacetate by
reductive carboxylation of pyruvate. The LDH-like
subfamily is part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 300
Score = 113 bits (286), Expect = 6e-30
Identities = 73/246 (29%), Positives = 117/246 (47%), Gaps = 22/246 (8%)
Query: 28 DALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNST 87
DIV+I AG PRKPG TR DL N NA I++++ + K P AI+ ++SNPV+
Sbjct: 62 ADAADADIVVITAGAPRKPGETRLDLINRNAPILRSVITNLKKYGPDAIILVVSNPVD-- 119
Query: 88 VPIAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVTIL 146
I V +K+ R++G T+LD R + +AE L +DP+ V V+G H G + +
Sbjct: 120 --ILTYVAQKLSGLPKNRVIGSGTLLDSARFRSLLAEKLDVDPQSVHAYVLGEH-GDSQV 176
Query: 147 PLLSQV----KPSCSLTPT---EIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFA 199
S P L P +++ + + ++ G E++ K G+ +A A A
Sbjct: 177 VAWSTATVGGLPLEELAPFTKLDLEAIEEEVRTSGYEIIRLK---GATNYGIATAIADIV 233
Query: 200 DACLRGLRGDAGVIECAYVASTVTELP--FFASKVRLGRAGIEEIYSLGPLNEYERAGLE 257
+ L R V+ + V + + +GR G+ I + PL E E A L+
Sbjct: 234 KSILLDER---RVLPVSAVQEGQYGIEDVALSVPAVVGREGVVRILEI-PLTEDEEAKLQ 289
Query: 258 KAKKEL 263
K+ + L
Sbjct: 290 KSAEAL 295
>gnl|CDD|173409 PTZ00117, PTZ00117, malate dehydrogenase; Provisional.
Length = 319
Score = 112 bits (281), Expect = 4e-29
Identities = 77/250 (30%), Positives = 121/250 (48%), Gaps = 32/250 (12%)
Query: 21 LGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLI 80
LG ED + D+V+I AGV RK MTR+DL IN I+K++ E + K CP A V +
Sbjct: 63 LGTNNYED-IKDSDVVVITAGVQRKEEMTREDLLTINGKIMKSVAESVKKYCPNAFVICV 121
Query: 81 SNPVNSTVPIAAEVFKKVGTYDPKRLLGVT-MLDVVRANTFVAEVLGLDPREVDVPVVGG 139
+NP++ +VF++ ++ G+ +LD R +AE LG+ P +V V+GG
Sbjct: 122 TNPLD----CMVKVFQEKSGIPSNKICGMAGVLDSSRFRCNLAEKLGVSPGDVSAVVIGG 177
Query: 140 HAGVTILPL----------LSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATL 189
H G ++PL LS ++T EI+ + + +N G E+V+ GSA
Sbjct: 178 H-GDLMVPLPRYCTVNGIPLSDFVKKGAITEKEINEIIKKTRNMGGEIVKL-LKKGSAFF 235
Query: 190 SMAYAAAKFADACLRGLRGDAGVIECA------YVASTVTELPFFASKVRLGRAGIEEIY 243
+ A A +A L+ + V+ C+ Y + F V +G GIE++
Sbjct: 236 APAAAIVAMIEAYLKDEK---RVLVCSVYLNGQYNCKNL----FVGVPVVIGGKGIEKVI 288
Query: 244 SLGPLNEYER 253
L LN E+
Sbjct: 289 EL-ELNAEEK 297
>gnl|CDD|173376 PTZ00082, PTZ00082, L-lactate dehydrogenase; Provisional.
Length = 321
Score = 107 bits (268), Expect = 3e-27
Identities = 81/265 (30%), Positives = 136/265 (51%), Gaps = 37/265 (13%)
Query: 20 FLGQQQLEDALTGMDIVIIPAGVPRKPGMT-----RDDLFNINAGIVKTLCEGIAKCCPK 74
+G ED + G D+VI+ AG+ ++PG + RDDL +NA I+ + EGI K CP
Sbjct: 63 VIGTNNYED-IAGSDVVIVTAGLTKRPGKSDKEWNRDDLLPLNAKIMDEVAEGIKKYCPN 121
Query: 75 AIVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVT-MLDVVRANTFVAEVLGLDPREVD 133
A V +I+NP++ V ++ ++ ++ G+ +LD R T++AE LG++PR+V
Sbjct: 122 AFVIVITNPLDVMV----KLLQEHSGLPKNKVCGMAGVLDSSRLRTYIAEKLGVNPRDVH 177
Query: 134 VPVVGGHAGVTILPL----------LSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTG 183
V+G H G ++PL LS+ +T EID + +R +N G E+V+ G
Sbjct: 178 ASVIGAH-GDKMVPLPRYVTVGGIPLSEFIKKGLITQEEIDEIVERTRNTGKEIVDL-LG 235
Query: 184 AGSATLSMAYAAAKFADACLRGLRGDAGVIECA------YVASTVTELPFFASKVRLGRA 237
GSA + A AA + A+A L+ + V+ C+ Y + + + +G
Sbjct: 236 TGSAYFAPAAAAIEMAEAYLKDKK---RVLPCSAYLEGQYGHKDI----YMGTPAVIGAN 288
Query: 238 GIEEIYSLGPLNEYERAGLEKAKKE 262
G+E+I L L E+ +++ KE
Sbjct: 289 GVEKIIEL-DLTPEEQKKFDESIKE 312
>gnl|CDD|233566 TIGR01771, L-LDH-NAD, L-lactate dehydrogenase. This model
represents the NAD-dependent L-lactate dehydrogenases
from bacteria and eukaryotes. This enzyme function as as
the final step in anaerobic glycolysis. Although lactate
dehydrogenases have in some cases been mistaken for
malate dehydrogenases due to the similarity of these two
substrates and the apparent ease with which evolution
can toggle these activities, critical residues have been
identified which can discriminate between the two
activities. At the time of the creation of this model no
hits above the trusted cutoff contained critical
residues typical of malate dehydrogenases [Energy
metabolism, Anaerobic, Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 299
Score = 98.8 bits (247), Expect = 3e-24
Identities = 66/248 (26%), Positives = 115/248 (46%), Gaps = 26/248 (10%)
Query: 30 LTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVP 89
D+V+I AG P+KPG TR +L N I+K++ + K I + +NPV+
Sbjct: 62 CKDADLVVITAGAPQKPGETRLELVGRNVRIMKSIVPEVVKSGFDGIFLVATNPVD---- 117
Query: 90 IAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGH-------- 140
I V K+ + R++G T+LD R +AE LG+DP+ V ++G H
Sbjct: 118 ILTYVAWKLSGFPKNRVIGSGTVLDTARLRYLLAEKLGVDPQSVHAYIIGEHGDSEVPVW 177
Query: 141 --AGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKF 198
A + +PLL +K + T +++ + +++ E++ K G+ + A A+
Sbjct: 178 SSATIGGVPLLDYLKAKGTETDLDLEEIEKEVRDAAYEIINRK---GATYYGIGMAVARI 234
Query: 199 ADACLRGLRGD---AGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAG 255
+A L + ++ Y V + LGR G+EEI L PL++ E+
Sbjct: 235 VEAILHDENRVLPVSAYLDGEYGIKDV----YIGVPAVLGRNGVEEIIEL-PLSDEEKEA 289
Query: 256 LEKAKKEL 263
+K+ + L
Sbjct: 290 FQKSAETL 297
>gnl|CDD|133427 cd05291, HicDH_like, L-2-hydroxyisocapronate dehydrogenases and
some bacterial L-lactate dehydrogenases.
L-2-hydroxyisocapronate dehydrogenase (HicDH) catalyzes
the conversion of a variety of 2-oxo carboxylic acids
with medium-sized aliphatic or aromatic side chains.
This subfamily is composed of HicDHs and some bacterial
L-lactate dehydrogenases (LDH). LDHs catalyze the last
step of glycolysis in which pyruvate is converted to
L-lactate. Bacterial LDHs can be non-allosteric or may
be activated by an allosteric effector such as
fructose-1,6-bisphosphate. Members of this subfamily
with known structures such as the HicDH of Lactobacillus
confusus, the non-allosteric LDH of Lactobacillus
pentosus, and the allosteric LDH of Bacillus
stearothermophilus, show that they exist as
homotetramers. The HicDH-like subfamily is part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 306
Score = 97.2 bits (243), Expect = 9e-24
Identities = 77/267 (28%), Positives = 117/267 (43%), Gaps = 45/267 (16%)
Query: 24 QQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNP 83
+DA DIV+I AG P+KPG TR DL NA I+K++ I I + SNP
Sbjct: 64 SDCKDA----DIVVITAGAPQKPGETRLDLLEKNAKIMKSIVPKIKASGFDGIFLVASNP 119
Query: 84 VNSTVPIAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGH-- 140
V+ + V +K+ R++G T LD R +AE L +DPR V V+G H
Sbjct: 120 VD----VITYVVQKLSGLPKNRVIGTGTSLDTARLRRALAEKLNVDPRSVHAYVLGEHGD 175
Query: 141 -----------AGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATL 189
G +L LL + K L+ ++D + + ++ G E++ K G+
Sbjct: 176 SQFVAWSTVTVGGKPLLDLLKEGK----LSELDLDEIEEDVRKAGYEIINGK---GATYY 228
Query: 190 SMAYAAAKFADACLRGLRGDAGVI-------ECAYVASTVTELPFFASKVRLGRAGIEEI 242
+A A A+ A L D I + Y V + +GR G+EE+
Sbjct: 229 GIATALARIVKAILN----DENAILPVSAYLDGEYGEKDV----YIGVPAIIGRNGVEEV 280
Query: 243 YSLGPLNEYERAGLEKAKKELAGSIQK 269
L L E E+ EK+ + +I+K
Sbjct: 281 IEL-DLTEEEQEKFEKSADIIKENIKK 306
>gnl|CDD|133430 cd05294, LDH-like_MDH_nadp, A lactate dehydrogenases-like structure
with malate dehydrogenase enzymatic activity. The
LDH-like MDH proteins have a lactate
dehyhydrogenase-like (LDH-like) structure and malate
dehydrogenase (MDH) enzymatic activity. This subgroup is
composed of some archaeal LDH-like MDHs that prefer
NADP(H) rather than NAD(H) as a cofactor. One member,
MJ0490 from Methanococcus jannaschii, has been observed
to form dimers and tetramers during crystalization,
although it is believed to exist primarilly as a
tetramer in solution. In addition to its MDH activity,
MJ0490 also possesses
fructose-1,6-bisphosphate-activated LDH activity.
Members of this subgroup have a higher sequence
similarity to LDHs than to other MDHs. LDH catalyzes the
last step of glycolysis in which pyruvate is converted
to L-lactate. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate. The
LDH-like MDHs are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)- binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenase,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 309
Score = 94.4 bits (235), Expect = 1e-22
Identities = 69/256 (26%), Positives = 115/256 (44%), Gaps = 45/256 (17%)
Query: 28 DALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNST 87
+ G DIVII AGVPRK GM+R DL NA IVK + IA+ P + +++NPV+
Sbjct: 68 SDVAGSDIVIITAGVPRKEGMSRLDLAKKNAKIVKKYAKQIAEFAPDTKILVVTNPVDVM 127
Query: 88 VPIAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVTIL 146
A K +D R+ G+ T LD +R +A+ + EV ++G H G +++
Sbjct: 128 TYKAL----KESGFDKNRVFGLGTHLDSLRFKVAIAKHFNVHISEVHTRIIGEH-GDSMV 182
Query: 147 PLLSQVK----PSCSLTPTE---IDYLTDRIQNGGTEVVEAKTGA----GSATLSMAYAA 195
PL+S P + ++ + + ++N G ++ K G+ SA ++
Sbjct: 183 PLISSTSIGGIPIKRFPEYKDFDVEKIVETVKNAGQNIISLKGGSEYGPASAISNLVRTI 242
Query: 196 AK----------FADACLRGLRGDAGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSL 245
A + + + G+R C V V+LG+ GIEEI +
Sbjct: 243 ANDERRILTVSTYLEGEIDGIRD-----VCIGVP------------VKLGKNGIEEIVPI 285
Query: 246 GPLNEYERAGLEKAKK 261
+++ ER K+ +
Sbjct: 286 -EMDDDEREAFRKSAE 300
>gnl|CDD|133428 cd05292, LDH_2, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed
predominantly of bacterial LDHs and a few fungal LDHs.
Bacterial LDHs may be non-allosteric or may be activated
by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 308
Score = 79.1 bits (196), Expect = 4e-17
Identities = 71/259 (27%), Positives = 114/259 (44%), Gaps = 41/259 (15%)
Query: 32 GMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVPIA 91
G D+V+I AG +KPG TR DL N I K + I K P AI+ +++NPV+ +
Sbjct: 67 GADVVVITAGANQKPGETRLDLLKRNVAIFKEIIPQILKYAPDAILLVVTNPVD----VL 122
Query: 92 AEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGH---------- 140
V K+ P R++G T+LD R + E LG+DPR V ++G H
Sbjct: 123 TYVAYKLSGLPPNRVIGSGTVLDTARFRYLLGEHLGVDPRSVHAYIIGEHGDSEVAVWSS 182
Query: 141 ---AGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAK 197
GV + + + + ++N E++E K G+ ++ A A+
Sbjct: 183 ANIGGVPLDEFCKLCGRPF--DEEVREEIFEEVRNAAYEIIERK---GATYYAIGLALAR 237
Query: 198 FADACLRGLRGD-------AGVIECAYVASTVT-ELPFFASKVRLGRAGIEEIYSLGPLN 249
+A LR D + +++ Y V LP V GR+G+E + PL+
Sbjct: 238 IVEAILR----DENSVLTVSSLLDGQYGIKDVALSLP---CIV--GRSGVERVLPP-PLS 287
Query: 250 EYERAGLEKAKKELAGSIQ 268
E E L + + L +I+
Sbjct: 288 EEEEEALRASAEVLKEAIE 306
>gnl|CDD|133426 cd05290, LDH_3, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed of
some bacterial LDHs from firmicutes,
gammaproteobacteria, and actinobacteria. Vertebrate LDHs
are non-allosteric, but some bacterial LDHs are
activated by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenase, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 307
Score = 75.8 bits (187), Expect = 6e-16
Identities = 49/144 (34%), Positives = 71/144 (49%), Gaps = 12/144 (8%)
Query: 28 DALTGMDIVIIPAGVPRKPGMT--RDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVN 85
D DI++I AG PG T R DL NA I++ + I K +A++ LI+NP++
Sbjct: 64 DDCADADIIVITAGPSIDPGNTDDRLDLAQTNAKIIREIMGNITKVTKEAVIILITNPLD 123
Query: 86 STVPIAAEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVT 144
V IAA F Y +++G TMLD R VA+ G+DP+ V V+G H G
Sbjct: 124 IAVYIAATEFD----YPANKVIGTGTMLDTARLRRIVADKYGVDPKNVTGYVLGEH-GSH 178
Query: 145 ILPLLSQVKPSCSLTPTEIDYLTD 168
P+ S V ++ +D L
Sbjct: 179 AFPVWSLV----NIAGLPLDELEA 198
>gnl|CDD|178836 PRK00066, ldh, L-lactate dehydrogenase; Reviewed.
Length = 315
Score = 73.0 bits (180), Expect = 6e-15
Identities = 65/253 (25%), Positives = 105/253 (41%), Gaps = 40/253 (15%)
Query: 32 GMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVPIA 91
D+V+I AG P+KPG TR DL N I K++ + I + SNPV+ I
Sbjct: 73 DADLVVITAGAPQKPGETRLDLVEKNLKIFKSIVGEVMASGFDGIFLVASNPVD----IL 128
Query: 92 AEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGH---------- 140
K+ + +R++G T LD R ++E L +DPR V ++G H
Sbjct: 129 TYATWKLSGFPKERVIGSGTSLDSARFRYMLSEKLDVDPRSVHAYIIGEHGDTEFPVWSH 188
Query: 141 AGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFAD 200
A V +PL ++ + ++D + + +++ E++E K G+ +A A A+
Sbjct: 189 ANVAGVPLEEYLEENEQYDEEDLDEIFENVRDAAYEIIEKK---GATYYGIAMALARITK 245
Query: 201 ACLRG----------LRGDAGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSLGPLNE 250
A L L G G + + + R GI EI L PLN+
Sbjct: 246 AILNNENAVLPVSAYLEGQYGEEDV-----------YIGVPAVVNRNGIREIVEL-PLND 293
Query: 251 YERAGLEKAKKEL 263
E+ + L
Sbjct: 294 DEKQKFAHSADVL 306
>gnl|CDD|133429 cd05293, LDH_1, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed of
eukaryotic LDHs. Vertebrate LDHs are non-allosteric.
This is in contrast to some bacterial LDHs that are
activated by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 312
Score = 71.9 bits (177), Expect = 1e-14
Identities = 63/249 (25%), Positives = 102/249 (40%), Gaps = 21/249 (8%)
Query: 34 DIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVPIAAE 93
+VI+ AG + G +R DL N I K + + K P AI+ ++SNPV+ I
Sbjct: 73 KVVIVTAGARQNEGESRLDLVQRNVDIFKGIIPKLVKYSPNAILLVVSNPVD----IMTY 128
Query: 94 VFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGH--------AGVT 144
V K+ R++G LD R +AE LG+ P V ++G H +GV
Sbjct: 129 VAWKLSGLPKHRVIGSGCNLDSARFRYLIAERLGVAPSSVHGWIIGEHGDSSVPVWSGVN 188
Query: 145 I--LPLLSQVK-PSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFADA 201
+ + L P + + ++ + EV++ K G + ++ + A DA
Sbjct: 189 VAGVRLQDLNPDIGTDKDPEKWKEVHKQVVDSAYEVIKLK---GYTSWAIGLSVADLVDA 245
Query: 202 CLRGLRGDAGVIECAYVASTVTELPFFASKVRLGRAGIEEIYSLGPLNEYERAGLEKAKK 261
LR V + + F + LG GI + PL E E+ L+K+
Sbjct: 246 ILRNTGRVHSVSTLVKGLHGIEDEVFLSLPCILGENGITHVIKQ-PLTEEEQEKLQKSAD 304
Query: 262 ELAGSIQKG 270
L +QK
Sbjct: 305 TLW-EVQKQ 312
>gnl|CDD|130820 TIGR01759, MalateDH-SF1, malate dehydrogenase. This model
represents a family of malate dehydrogenases in bacteria
and eukaryotes which utilize either NAD or NADP
depending on the species and context. MDH interconverts
malate and oxaloacetate and is a part of the citric acid
cycle as well as the C4 cycle in certain photosynthetic
organisms.
Length = 323
Score = 69.3 bits (170), Expect = 1e-13
Identities = 54/190 (28%), Positives = 86/190 (45%), Gaps = 17/190 (8%)
Query: 17 VRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAI 76
+ G + E+A +D ++ PRKPGM R DL + N I K + + K K +
Sbjct: 64 LAGVVATTDPEEAFKDVDAALLVGAFPRKPGMERADLLSKNGKIFKEQGKALNKVAKKDV 123
Query: 77 -VNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREV-DV 134
V ++ NP N+ IA++ + PK +T LD RA +A G+ +V +V
Sbjct: 124 KVLVVGNPANTNALIASKNAPDI---PPKNFSAMTRLDHNRAKYQLAAKAGVPVSDVKNV 180
Query: 135 PVVGGHAGVTILPLLSQ----VKPSCSLTPTEIDYL----TDRIQNGGTEVVEAKTGAGS 186
+ G H+ T +P + +P + + +L +Q G V+EA+ GA S
Sbjct: 181 IIWGNHSN-TQVPDFTHATVDGRPVKEVIKDD-KWLEGEFIPTVQQRGAAVIEAR-GASS 237
Query: 187 ATLSMAYAAA 196
A S A AA
Sbjct: 238 A-ASAANAAI 246
>gnl|CDD|178212 PLN02602, PLN02602, lactate dehydrogenase.
Length = 350
Score = 69.0 bits (169), Expect = 2e-13
Identities = 61/253 (24%), Positives = 109/253 (43%), Gaps = 25/253 (9%)
Query: 32 GMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAIVNLISNPVNSTVPIA 91
G D+ I+ AG + PG +R +L N + + + +AK P I+ ++SNPV+ +
Sbjct: 105 GSDLCIVTAGARQIPGESRLNLLQRNVALFRKIIPELAKYSPDTILLIVSNPVD----VL 160
Query: 92 AEVFKKVGTYDPKRLLGV-TMLDVVRANTFVAEVLGLDPREVDVPVVGGH---------- 140
V K+ + R++G T LD R +A+ L ++ ++V +VG H
Sbjct: 161 TYVAWKLSGFPANRVIGSGTNLDSSRFRFLIADHLDVNAQDVQAYIVGEHGDSSVALWSS 220
Query: 141 ---AGVTILPLLSQVKPSCSLTPTEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAK 197
GV +L L K + ++ + + + EV++ K G + ++ Y+ A
Sbjct: 221 VSVGGVPVLSFLE--KQQIAYEKETLEEIHRAVVDSAYEVIKLK---GYTSWAIGYSVAS 275
Query: 198 FADACLRGLRGDAGVIECAYVASTVTELPFFAS-KVRLGRAGIEEIYSLGPLNEYERAGL 256
+ LR R V A + E F S +LGR G+ + ++ L + E L
Sbjct: 276 LVRSLLRDQRRIHPVSVLAKGFHGIDEGDVFLSLPAQLGRNGVLGVVNV-HLTDEEAERL 334
Query: 257 EKAKKELAGSIQK 269
K+ K L +
Sbjct: 335 RKSAKTLWEVQSQ 347
>gnl|CDD|133420 cd00704, MDH, Malate dehydrogenase. Malate dehydrogenase (MDH) is
one of the key enzymes in the citric acid cycle,
facilitating both the conversion of malate to
oxaloacetate and replenishing levels of oxalacetate by
reductive carboxylation of pyruvate. MDHs belong to the
NAD-dependent, lactate dehydrogenase (LDH)-like,
2-hydroxycarboxylate dehydrogenase family, which also
includes the GH4 family of glycoside hydrolases. They
are part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 323
Score = 68.8 bits (169), Expect = 2e-13
Identities = 59/198 (29%), Positives = 83/198 (41%), Gaps = 18/198 (9%)
Query: 11 DVDSRAVRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAK 70
D ++G + E+A +D+ I+ PRKPGM R DL NA I K E + K
Sbjct: 55 DCAFPLLKGVVITTDPEEAFKDVDVAILVGAFPRKPGMERADLLRKNAKIFKEQGEALNK 114
Query: 71 CC-PKAIVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDP 129
P V ++ NP N+ IA K PK +T LD RA VA LG+
Sbjct: 115 VAKPTVKVLVVGNPANTNALIAL---KNAPNLPPKNFTALTRLDHNRAKAQVARKLGVRV 171
Query: 130 REV-DVPVVGGHAGVTILPLLSQVK----PSCSLTPTEIDY------LTDRIQNGGTEVV 178
+V +V + G H+ T +P LS +D +Q G ++
Sbjct: 172 SDVKNVIIWGNHSN-TQVPDLSNAVVYGPGGTEWVLDLLDEEWLNDEFVKTVQKRGAAII 230
Query: 179 EAKTGAGSATLSMAYAAA 196
+ + GA SA S A A A
Sbjct: 231 KKR-GASSA-ASAAKAIA 246
>gnl|CDD|130817 TIGR01756, LDH_protist, lactate dehydrogenase. This model
represents a family of protist lactate dehydrogenases
which have aparrently evolved from a recent protist
malate dehydrogenase ancestor. Lactate dehydrogenase
converts the hydroxyl at C-2 of lactate to a carbonyl in
the product, pyruvate. The preference of this enzyme for
NAD or NADP has not been determined. A critical residue
in malate dehydrogenase, arginine-91 (T. vaginalis
numbering) has been mutated to a leucine, eliminating
the positive charge which complemeted the carboxylate in
malate which is absent in lactate. Several other more
subtle changes are proposed to make the active site
smaller to accomadate the less bulky lactate molecule.
Length = 313
Score = 63.0 bits (153), Expect = 2e-11
Identities = 40/137 (29%), Positives = 61/137 (44%), Gaps = 8/137 (5%)
Query: 19 GFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGI---AKCCPKA 75
G + +LE+A +D + A VP KPG R DL N I K E + AK K
Sbjct: 47 GTIVTTKLEEAFKDIDCAFLVASVPLKPGEVRADLLTKNTPIFKATGEALSEYAKPTVKV 106
Query: 76 IVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREVDVP 135
+V I NPVN+ +A K+ + + MLD RA + +A L + +
Sbjct: 107 LV--IGNPVNTNCLVAMLHAPKL---SAENFSSLCMLDHNRAVSRIASKLKVPVDHIYHV 161
Query: 136 VVGGHAGVTILPLLSQV 152
VV G+ +++ L+
Sbjct: 162 VVWGNHAESMVADLTHA 178
>gnl|CDD|133421 cd01336, MDH_cytoplasmic_cytosolic, Cytoplasmic and cytosolic
Malate dehydrogenases. MDH is one of the key enzymes in
the citric acid cycle, facilitating both the conversion
of malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate.
Members of this subfamily are eukaryotic MDHs localized
to the cytoplasm and cytosol. MDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 325
Score = 57.3 bits (139), Expect = 2e-09
Identities = 50/185 (27%), Positives = 79/185 (42%), Gaps = 25/185 (13%)
Query: 27 EDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAI-VNLISNPVN 85
E+A +D+ I+ +PRK GM R DL N I K E + K K + V ++ NP N
Sbjct: 73 EEAFKDVDVAILVGAMPRKEGMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGNPAN 132
Query: 86 STVPIAAEVFKKVGTYDPKR-LLGVTMLDVVRANTFVAEVLGLDPREV-DVPVVGGHAGV 143
+ I + + PK +T LD RA + +A LG+ +V +V + G H+
Sbjct: 133 TNALILLKYAPSI----PKENFTALTRLDHNRAKSQIALKLGVPVSDVKNVIIWGNHSS- 187
Query: 144 TILPLLSQVKPSCSLTPTEI-------DYLTD----RIQNGGTEVVEAKTGAGSATLSMA 192
T P ++ + +L +Q G V++A+ LS A
Sbjct: 188 TQYPDVNHATVELNGKGKPAREAVKDDAWLNGEFISTVQKRGAAVIKAR------KLSSA 241
Query: 193 YAAAK 197
+AAK
Sbjct: 242 MSAAK 246
>gnl|CDD|130819 TIGR01758, MDH_euk_cyt, malate dehydrogenase, NAD-dependent. This
model represents the NAD-dependent cytosolic malate
dehydrogenase from eukaryotes. The enzyme from pig has
been studied by X-ray crystallography.
Length = 324
Score = 55.2 bits (133), Expect = 7e-09
Identities = 51/185 (27%), Positives = 77/185 (41%), Gaps = 25/185 (13%)
Query: 29 ALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAI-VNLISNPVNST 87
A T +D+ I+ PRK GM R DL + N I K + K K V ++ NP N+
Sbjct: 72 AFTDVDVAILVGAFPRKEGMERRDLLSKNVKIFKEQGRALDKLAKKDCKVLVVGNPANTN 131
Query: 88 VPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREV-DVPVVGGHAGVTIL 146
+ + + PK +T LD RA VAE G+ +V +V + G H+ T
Sbjct: 132 ALVLSNYAPSI---PPKNFSALTRLDHNRALAQVAERAGVPVSDVKNVIIWGNHSS-TQY 187
Query: 147 PLLSQ--VKPSCSLTPTEIDYLTDR----------IQNGGTEVVEAKTGAGSATLSMAYA 194
P ++ V P + + D +Q G ++ A+ LS A +
Sbjct: 188 PDVNHATVTKGGKQKPVR-EAIKDDAYLDGEFITTVQQRGAAIIRAR------KLSSALS 240
Query: 195 AAKFA 199
AAK A
Sbjct: 241 AAKAA 245
>gnl|CDD|177744 PLN00135, PLN00135, malate dehydrogenase.
Length = 309
Score = 51.3 bits (123), Expect = 1e-07
Identities = 36/128 (28%), Positives = 63/128 (49%), Gaps = 5/128 (3%)
Query: 16 AVRGFLGQQQLEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCC-PK 74
++G + + +A G++I ++ G PRK GM R D+ + N I K+ + K P
Sbjct: 42 LLKGVVATTDVVEACKGVNIAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAPD 101
Query: 75 AIVNLISNPVNSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREV-D 133
V +++NP N+ I E + K + +T LD RA ++E LG+ +V +
Sbjct: 102 CKVLVVANPANTNALILKEFAPSI---PEKNITCLTRLDHNRALGQISERLGVPVSDVKN 158
Query: 134 VPVVGGHA 141
V + G H+
Sbjct: 159 VIIWGNHS 166
>gnl|CDD|133423 cd01338, MDH_choloroplast_like, Chloroplast-like malate
dehydrogenases. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate.
Members of this subfamily are bacterial MDHs, and plant
MDHs localized to the choloroplasts. MDHs are part of
the NAD(P)-binding Rossmann fold superfamily, which
includes a wide variety of protein families including
the NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 322
Score = 51.0 bits (123), Expect = 2e-07
Identities = 44/179 (24%), Positives = 67/179 (37%), Gaps = 13/179 (7%)
Query: 26 LEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAK-CCPKAIVNLISNPV 84
A D ++ PR PGM R DL N I + + V ++ NP
Sbjct: 72 PNVAFKDADWALLVGAKPRGPGMERADLLKANGKIFTAQGKALNDVASRDVKVLVVGNPC 131
Query: 85 NSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREVDVPVVGGHAGVT 144
N+ IA + + P +T LD RA + +A+ G+ +V V+ G+ T
Sbjct: 132 NTNALIAMKNAPDI---PPDNFTAMTRLDHNRAKSQLAKKAGVPVTDVKNMVIWGNHSPT 188
Query: 145 ILPLLSQVKPSCSLTPTEI-------DYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAA 196
P + I D +Q G +++A+ GA SA S A AA
Sbjct: 189 QYPDFTNATIGGKPAAEVINDRAWLEDEFIPTVQKRGAAIIKAR-GASSAA-SAANAAI 245
>gnl|CDD|235468 PRK05442, PRK05442, malate dehydrogenase; Provisional.
Length = 326
Score = 47.9 bits (115), Expect = 2e-06
Identities = 46/180 (25%), Positives = 76/180 (42%), Gaps = 17/180 (9%)
Query: 26 LEDALTGMDIVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEGIAKCCPKAI-VNLISNPV 84
A D+ ++ PR PGM R DL N I + + + + + V ++ NP
Sbjct: 74 PNVAFKDADVALLVGARPRGPGMERKDLLEANGAIFTAQGKALNEVAARDVKVLVVGNPA 133
Query: 85 NSTVPIAAEVFKKVGTYDPKRLLGVTMLDVVRANTFVAEVLGLDPREV-DVPVVGGHAGV 143
N+ IA + + + +T LD RA + +A G+ ++ + V G H+
Sbjct: 134 NTNALIAMKNAPDL---PAENFTAMTRLDHNRALSQLAAKAGVPVADIKKMTVWGNHSA- 189
Query: 144 TILPLLSQV----KPSCSLTPTEIDYLTD----RIQNGGTEVVEAKTGAGSATLSMAYAA 195
T P KP+ + + +L D +Q G ++EA+ GA SA S A AA
Sbjct: 190 TQYPDFRHATIDGKPAAEVINDQ-AWLEDTFIPTVQKRGAAIIEAR-GASSAA-SAANAA 246
>gnl|CDD|215060 PLN00112, PLN00112, malate dehydrogenase (NADP); Provisional.
Length = 444
Score = 36.7 bits (85), Expect = 0.010
Identities = 28/79 (35%), Positives = 34/79 (43%), Gaps = 10/79 (12%)
Query: 43 PRKPGMTRDDLFNINAGIV----KTLCEGIAKCCPKAIVNLISNPVNSTVPIAAEVFKKV 98
PR PGM R DL +IN I K L E ++ K IV + NP N+ I K
Sbjct: 187 PRGPGMERADLLDINGQIFAEQGKALNEVASRNV-KVIV--VGNPCNTNALIC---LKNA 240
Query: 99 GTYDPKRLLGVTMLDVVRA 117
K +T LD RA
Sbjct: 241 PNIPAKNFHALTRLDENRA 259
>gnl|CDD|130818 TIGR01757, Malate-DH_plant, malate dehydrogenase, NADP-dependent.
This model represents the NADP-dependent malate
dehydrogenase found in plants, mosses and green algae
and localized to the chloroplast. Malate dehydrogenase
converts oxaloacetate into malate, a critical step in
the C4 cycle which allows circumvention of the effects
of photorespiration. Malate is subsequenctly transported
from the chloroplast to the cytoplasm (and then to the
bundle sheath cells in C4 plants). The plant and moss
enzymes are light regulated via cysteine disulfide
bonds. The enzyme from Sorghum has been crystallized.
Length = 387
Score = 32.3 bits (73), Expect = 0.26
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 43 PRKPGMTRDDLFNINAGIV----KTLCEGIAKCCPKAIVNLISNPVNSTVPIAAE 93
PR PGM R DL +IN I K L +K C V ++ NP N+ IA +
Sbjct: 131 PRGPGMERADLLDINGQIFADQGKALNAVASKNCK---VLVVGNPCNTNALIAMK 182
>gnl|CDD|182031 PRK09694, PRK09694, helicase Cas3; Provisional.
Length = 878
Score = 32.1 bits (73), Expect = 0.37
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 159 TPTEIDYLTDRI-QNGGTEVVEAKTGAGSATLSMAYA----AAKFADACLRGL 206
P ++ L D + G ++EA TG+G ++AYA AD+ + L
Sbjct: 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFAL 338
>gnl|CDD|133433 cd05297, GH4_alpha_glucosidase_galactosidase, Glycoside Hydrolases
Family 4; Alpha-glucosidases and alpha-galactosidases.
Glucosidases cleave glycosidic bonds to release glucose
from oligosaccharides. Alpha-glucosidases and
alpha-galactosidases release alpha-D-glucose and
alpha-D-galactose, respectively, via the hydrolysis of
alpha-glycopyranoside bonds. Some bacteria
simultaneously translocate and phosphorylate
disaccharides via the phosphoenolpyruvate-dependent
phosphotransferase system (PEP-PTS). After
translocation, these phospho-disaccharides may be
hydrolyzed by the GH4 glycoside hydrolases such as the
alpha-glucosidases. Other organsisms (such as archaea
and Thermotoga maritima) lack the PEP-PTS system, but
have several enzymes normally associated with the
PEP-PTS operon. Alpha-glucosidases and
alpha-galactosidases are part of the NAD(P)-binding
Rossmann fold superfamily, which includes a wide variety
of protein families including the NAD(P)-binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 423
Score = 31.8 bits (73), Expect = 0.41
Identities = 34/149 (22%), Positives = 44/149 (29%), Gaps = 58/149 (38%)
Query: 26 LEDALTGMDIVIIPAGVPRKPGMTRDDLFNINA---------------GIVKTL------ 64
+AL G D VI V D F I GI + L
Sbjct: 68 RREALDGADFVINTIQVGGHEYTETD--FEIPEKYGYYQTVGDTSGPGGIFRALRTIPVL 125
Query: 65 ---CEGIAKCCPKAIVNLISNPV-------NSTVPIAA-----EVFKKVGTYDPKRLLGV 109
I + CP A + +NP+ N PI V GT +
Sbjct: 126 LDIARDIEELCPDAWLLNYANPMAELTWALNRYTPIKTVGLCHGVQ---GTAE------- 175
Query: 110 TMLDVVRANTFVAEVLGLDPREVDVPVVG 138
+A++LG P EVD V G
Sbjct: 176 ----------QLAKLLGEPPEEVDYQVAG 194
>gnl|CDD|129954 TIGR00876, tal_mycobact, transaldolase, mycobacterial type. This
model describes one of three related but easily
separable famiiles of known and putative transaldolases.
This family and the family typified by E. coli TalA and
TalB both contain experimentally verified examples
[Energy metabolism, Pentose phosphate pathway].
Length = 350
Score = 30.9 bits (69), Expect = 0.70
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 161 TEIDYLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAKFADA-CLRGLRGDAGVIECAYVA 219
EID L D+I + ++A+ G +A L+ A F D+ C R ++ DA ++ A
Sbjct: 199 KEIDKLLDKIGSRQALELQAQAGIANARLAYATYREVFEDSDCYRQIKQDAAKLQRPLFA 258
Query: 220 STVTELPFFA 229
ST + A
Sbjct: 259 STGVKNNDLA 268
>gnl|CDD|224403 COG1486, CelF, Alpha-galactosidases/6-phospho-beta-glucosidases,
family 4 of glycosyl hydrolases [Carbohydrate transport
and metabolism].
Length = 442
Score = 30.7 bits (70), Expect = 0.95
Identities = 37/137 (27%), Positives = 53/137 (38%), Gaps = 34/137 (24%)
Query: 26 LEDALTGMDIVIIPA------------GVPRKPGMTRDDLFNINAGIVKTL--------- 64
+AL G D VI +P K G+ + N GI L
Sbjct: 71 RREALEGADFVITQIRVGGLEAREKDERIPLKHGLYGQE-TNGPGGIFYGLRTIPVILDI 129
Query: 65 CEGIAKCCPKAIVNLISNPVNSTVPIAAEVFKKVGTYDPK-RLLGVTMLDVVRANTF-VA 122
+ + K CP A + +NP AA V + V PK +++G+ +A
Sbjct: 130 AKDMEKVCPNAWMLNYTNP-------AAIVTEAVRRLYPKIKIVGLC--HGPIGIAMELA 180
Query: 123 EVLGLDPRE-VDVPVVG 138
EVLGL+PRE + V G
Sbjct: 181 EVLGLEPREDLRYRVAG 197
>gnl|CDD|216783 pfam01915, Glyco_hydro_3_C, Glycosyl hydrolase family 3 C-terminal
domain. This domain is involved in catalysis and may be
involved in binding beta-glucan. This domain is found
associated with pfam00933.
Length = 221
Score = 30.0 bits (68), Expect = 1.0
Identities = 18/85 (21%), Positives = 30/85 (35%), Gaps = 6/85 (7%)
Query: 123 EVLGLDPREVDVPVVGGHAGVTILPLL---SQVKPSCSLTPTEIDYLTDRIQNGGTEVV- 178
+L L ++ + V+G +A P T +D + R N V
Sbjct: 9 NLLPLSKKKRKIAVIGPNADDPPNGGGGWSGTGNP--PYLVTPLDGIRARAGNATVVVYG 66
Query: 179 EAKTGAGSATLSMAYAAAKFADACL 203
+ ++ A AAAK AD +
Sbjct: 67 GSNLEDDDTGIAEAVAAAKDADVAI 91
>gnl|CDD|178267 PLN02661, PLN02661, Putative thiazole synthesis.
Length = 357
Score = 29.8 bits (67), Expect = 1.5
Identities = 17/33 (51%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 165 YLTDRIQNGGTEVVEAKTGAGSATLSMAYAAAK 197
Y+TD I T+VV GAGSA LS AY +K
Sbjct: 83 YMTDMITYADTDVV--IVGAGSAGLSCAYELSK 113
>gnl|CDD|179337 PRK01810, PRK01810, DNA polymerase IV; Validated.
Length = 407
Score = 30.0 bits (68), Expect = 1.5
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 91 AAEVFKKVGTYDPKRLLGVTMLDVV 115
A+ +FK+ DP RLLGVT D+
Sbjct: 321 ASRLFKQHWNGDPVRLLGVTATDLE 345
>gnl|CDD|189960 pfam01371, Trp_repressor, Trp repressor protein. This protein
binds to tryptophan and represses transcription of the
Trp operon.
Length = 88
Score = 28.0 bits (63), Expect = 1.6
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 8/41 (19%)
Query: 158 LTPTEIDYLTDRIQ------NGGT--EVVEAKTGAGSATLS 190
LTP E + L R++ G + + GA AT++
Sbjct: 27 LTPDEREALAQRLRIAKELLRGELSQREIAQELGASIATIT 67
>gnl|CDD|117458 pfam08891, YfcL, YfcL protein. This family of proteins are
functionally uncharacterized. THey are related to the
short YfcL protein from E. coli.
Length = 85
Score = 27.6 bits (62), Expect = 2.3
Identities = 12/41 (29%), Positives = 19/41 (46%)
Query: 232 VRLGRAGIEEIYSLGPLNEYERAGLEKAKKELAGSIQKGVS 272
+ + + E L L + LEKAK EL+ + Q V+
Sbjct: 36 LAVAQLEEEGETDLEALKQKMEQSLEKAKGELSPADQALVN 76
>gnl|CDD|178031 PLN02409, PLN02409, serine--glyoxylate aminotransaminase.
Length = 401
Score = 28.6 bits (64), Expect = 3.5
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 19 GFLGQQQLEDALTGMDIVIIPAGVPRKPG 47
G + + QL AL G+++V+ G P K G
Sbjct: 352 GNVNELQLLGALAGVEMVLKDVGYPVKLG 380
>gnl|CDD|226893 COG4496, COG4496, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 100
Score = 26.3 bits (58), Expect = 6.8
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 7/39 (17%)
Query: 159 TPTEIDYLTDRIQ------NGGT-EVVEAKTGAGSATLS 190
T EI L R+Q G T +E +TGA +AT+S
Sbjct: 36 TINEIQSLAQRLQVAKMLKEGRTYRDIEDETGASTATIS 74
>gnl|CDD|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense
mechanisms].
Length = 733
Score = 27.8 bits (62), Expect = 7.7
Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 21/69 (30%)
Query: 177 VVEAKTGAGSATLSMAYAAAKFADACLRGLRGDAGVIECAYVASTVTELPFFASKVRLGR 236
V+EA TG G S+ A A + + + VI YV LPF R
Sbjct: 218 VLEAPTGYGKTEASLILALALLDEKI----KLKSRVI---YV------LPF--------R 256
Query: 237 AGIEEIYSL 245
IE++Y
Sbjct: 257 TIIEDMYRR 265
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.137 0.392
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,306,647
Number of extensions: 1409977
Number of successful extensions: 1534
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1484
Number of HSP's successfully gapped: 59
Length of query: 276
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 180
Effective length of database: 6,679,618
Effective search space: 1202331240
Effective search space used: 1202331240
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 (21.7 bits)
S2: 58 (26.0 bits)