RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022546
(295 letters)
>gnl|CDD|215058 PLN00106, PLN00106, malate dehydrogenase.
Length = 323
Score = 585 bits (1510), Expect = 0.0
Identities = 225/287 (78%), Positives = 257/287 (89%), Gaps = 1/287 (0%)
Query: 1 MKLDPLVSSLSLYDIANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVP 60
MK++PLVS L LYDIANTPGVAADVSHIN+PAQV G+ G++QLG AL+G+D+VIIPAGVP
Sbjct: 38 MKMNPLVSELHLYDIANTPGVAADVSHINTPAQVRGFLGDDQLGDALKGADLVIIPAGVP 97
Query: 61 RKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDE 120
RKPGMTRDDLFNINAGIVK+LC A+A +CP+ALVN+ISNPVNSTVPIAAEV KKAG YD
Sbjct: 98 RKPGMTRDDLFNINAGIVKTLCEAVAKHCPNALVNIISNPVNSTVPIAAEVLKKAGVYDP 157
Query: 121 KKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNNLSDEE 180
KKLFGVTTLDVVRA TF A K + A+V+VPV+GGHAG+TILPL SQATPK + +DEE
Sbjct: 158 KKLFGVTTLDVVRANTFVAEKKGLDPADVDVPVVGGHAGITILPLLSQATPKV-SFTDEE 216
Query: 181 IKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVECTFVQSSV 240
I+ALTKR Q+GGTEVVEAKAG GSATLSMAYA A FADACL GLNG D+VEC++VQS V
Sbjct: 217 IEALTKRIQNGGTEVVEAKAGAGSATLSMAYAAARFADACLRGLNGEADVVECSYVQSEV 276
Query: 241 TELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEK 287
TELPFFASKVRLG+NG +EVLGLGPLS+YE++GLE+LKPELKASIEK
Sbjct: 277 TELPFFASKVRLGRNGVEEVLGLGPLSEYEQKGLEALKPELKASIEK 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 = 513 bits (1325), Expect = 0.0
Identities = 199/292 (68%), Positives = 234/292 (80%), Gaps = 1/292 (0%)
Query: 1 MKLDPLVSSLSLYDIANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVP 60
+KL+PLVS L+LYDI NTPGVAAD+SHIN+PA+V GY G E+L KAL+G+DVV+IPAGVP
Sbjct: 20 LKLNPLVSELALYDIVNTPGVAADLSHINTPAKVTGYLGPEELKKALKGADVVVIPAGVP 79
Query: 61 RKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDE 120
RKPGMTRDDLFNINAGIV+ L TA+A CP AL+ +ISNPVNSTVPIAAEV KKAG YD
Sbjct: 80 RKPGMTRDDLFNINAGIVRDLATAVAKACPKALILIISNPVNSTVPIAAEVLKKAGVYDP 139
Query: 121 KKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNNLSDEE 180
K+LFGVTTLDVVRA TF A + + A+VNVPVIGGH+GVTILPL SQ P EE
Sbjct: 140 KRLFGVTTLDVVRANTFVAELLGLDPAKVNVPVIGGHSGVTILPLLSQCQPPF-TFDQEE 198
Query: 181 IKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVECTFVQSSV 240
I+ALT R Q GG EVV+AKAG GSATLSMAYAGA FA++ L GL G ++EC +V+S V
Sbjct: 199 IEALTHRIQFGGDEVVKAKAGAGSATLSMAYAGARFANSLLRGLKGEKGVIECAYVESDV 258
Query: 241 TELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFA 292
TE PFFA+ V LGKNG ++ LGLG L+DYEK+ LE+ PELK +IEKG+ F
Sbjct: 259 TEAPFFATPVELGKNGVEKNLGLGKLNDYEKKLLEAALPELKKNIEKGVDFV 310
>gnl|CDD|235340 PRK05086, PRK05086, malate dehydrogenase; Provisional.
Length = 312
Score = 388 bits (1000), Expect = e-137
Identities = 159/290 (54%), Positives = 197/290 (67%), Gaps = 4/290 (1%)
Query: 5 PLVSSLSLYDIAN-TPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPRKP 63
P S LSLYDIA TPGVA D+SHI + +++G++GE+ ALEG+DVV+I AGV RKP
Sbjct: 25 PAGSELSLYDIAPVTPGVAVDLSHIPTAVKIKGFSGED-PTPALEGADVVLISAGVARKP 83
Query: 64 GMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKL 123
GM R DLFN+NAGIVK+L +A CP A + +I+NPVN+TV IAAEV KKAG YD+ KL
Sbjct: 84 GMDRSDLFNVNAGIVKNLVEKVAKTCPKACIGIITNPVNTTVAIAAEVLKKAGVYDKNKL 143
Query: 124 FGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNNLSDEEIKA 183
FGVTTLDV+R++TF A EV VPVIGGH+GVTILPL SQ S +++E+
Sbjct: 144 FGVTTLDVIRSETFVAELKGKQPGEVEVPVIGGHSGVTILPLLSQVPGVS--FTEQEVAD 201
Query: 184 LTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVECTFVQSSVTEL 243
LTKR Q+ GTEVVEAKAG GSATLSM A A F + + L G +VEC +V+
Sbjct: 202 LTKRIQNAGTEVVEAKAGGGSATLSMGQAAARFGLSLVRALQGEQGVVECAYVEGDGKYA 261
Query: 244 PFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFAN 293
FFA V LGKNG +E L +G LS +E+ LE + LK I G +F N
Sbjct: 262 RFFAQPVLLGKNGVEERLPIGTLSAFEQNALEGMLDTLKKDIALGEEFVN 311
>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 = 381 bits (981), Expect = e-134
Identities = 174/294 (59%), Positives = 217/294 (73%), Gaps = 2/294 (0%)
Query: 1 MKLDPLVSSLSLYDIANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVP 60
+KL P VS LSLYDIA GVAAD+SHI + A V+G++GEE L AL+G+DVV+IPAGVP
Sbjct: 19 LKLQPYVSELSLYDIAGAAGVAADLSHIPTAASVKGFSGEEGLENALKGADVVVIPAGVP 78
Query: 61 RKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDE 120
RKPGMTRDDLFN+NAGIVK L A+A CP A++ +I+NPVNSTVPIAAEV KK G YD
Sbjct: 79 RKPGMTRDDLFNVNAGIVKDLVAAVAESCPKAMILVITNPVNSTVPIAAEVLKKKGVYDP 138
Query: 121 KKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNNLSDEE 180
KLFGVTTLD+VRA TF A EVNVPVIGGH+G TI+PL SQ K ++++
Sbjct: 139 NKLFGVTTLDIVRANTFVAELKGKDPMEVNVPVIGGHSGETIIPLISQCPGKV-LFTEDQ 197
Query: 181 IKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVECTFVQS-S 239
++AL R Q+ GTEVV+AKAG GSATLSMA+AGA F + + GL G +VEC +V+S
Sbjct: 198 LEALIHRIQNAGTEVVKAKAGAGSATLSMAFAGARFVLSLVRGLKGEEGVVECAYVESDG 257
Query: 240 VTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFAN 293
VTE FFA+ + LGKNG ++ LG+G LS +E++ L PELK +I+KG +F
Sbjct: 258 VTEATFFATPLLLGKNGVEKRLGIGKLSSFEEKMLNGALPELKKNIKKGEEFVA 311
>gnl|CDD|240360 PTZ00325, PTZ00325, malate dehydrogenase; Provisional.
Length = 321
Score = 363 bits (934), Expect = e-126
Identities = 173/295 (58%), Positives = 219/295 (74%), Gaps = 4/295 (1%)
Query: 1 MKLDPLVSSLSLYDIANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVP 60
+K +P VS LSLYDI PGVAAD+SHI++PA+V GYA E KAL G+D+V+I AGVP
Sbjct: 28 LKQNPHVSELSLYDIVGAPGVAADLSHIDTPAKVTGYADGELWEKALRGADLVLICAGVP 87
Query: 61 RKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDE 120
RKPGMTRDDLFN NA IV+ L A+A+ P A+V ++SNPVNSTVPIAAE KKAG YD
Sbjct: 88 RKPGMTRDDLFNTNAPIVRDLVAAVASSAPKAIVGIVSNPVNSTVPIAAETLKKAGVYDP 147
Query: 121 KKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNNLSDEE 180
+KLFGVTTLDVVRA+ F A + + +VNVPV+GGH+GVTI+PL SQ T S L +E+
Sbjct: 148 RKLFGVTTLDVVRARKFVAEALGMNPYDVNVPVVGGHSGVTIVPLLSQ-TGLS--LPEEQ 204
Query: 181 IKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVECTFVQSSV 240
++ +T R Q GG EVV+AK G GSATLSMAYA A ++ + L L G IVEC FV+S +
Sbjct: 205 VEQITHRVQVGGDEVVKAKEGAGSATLSMAYAAAEWSTSVLKALRGDKGIVECAFVESDM 264
Query: 241 T-ELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFANR 294
E PFF+S V LGK G + VL +GPL+ YE++ LE+ P+LK +IEKG++FA +
Sbjct: 265 RPECPFFSSPVELGKEGVERVLPIGPLNAYEEELLEAAVPDLKKNIEKGLEFARK 319
>gnl|CDD|223117 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 237 bits (606), Expect = 4e-77
Identities = 107/301 (35%), Positives = 154/301 (51%), Gaps = 19/301 (6%)
Query: 3 LDPLVSSLSLYDIAN--TPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVP 60
L L S L L DI GVA D+SH +P + + + L+G+D+V+I AGVP
Sbjct: 21 LQGLGSELVLIDINEEKAEGVALDLSHAAAPLGSDVKITGDGDYEDLKGADIVVITAGVP 80
Query: 61 RKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDE 120
RKPGMTR DL NA IVK + AIA Y P A+V +++NPV+ IA + +G
Sbjct: 81 RKPGMTRLDLLEKNAKIVKDIAKAIAKYAPDAIVLVVTNPVDILTYIAMKF---SGFPKN 137
Query: 121 KKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNNLSD-- 178
+ + T LD R +TF A K+ V +V+ VIG H G T++PL+SQAT L +
Sbjct: 138 RVIGSGTVLDSARFRTFLAEKLGVSPKDVHAYVIGEH-GDTMVPLWSQATVGGKPLEELL 196
Query: 179 -----EEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVEC 233
E+++ L +R ++ G E++EAK A A A +A L V +
Sbjct: 197 KEDTEEDLEELIERVRNAGAEIIEAK--GAGTYYGPAAALARMVEAILRDEKRV--LPVS 252
Query: 234 TFVQSS-VTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFA 292
++ E +F LGKNG +E+L L LSD E++ L+ ELK +IE +
Sbjct: 253 VYLDGEYGVEDVYFGVPAVLGKNGVEEILEL-LLSDDEQEKLDKSAEELKKNIELVKELV 311
Query: 293 N 293
Sbjct: 312 L 312
>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 = 169 bits (429), Expect = 2e-52
Identities = 74/178 (41%), Positives = 97/178 (54%), Gaps = 17/178 (9%)
Query: 127 TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAG----------VTILPLFSQATPKSNNL 176
TTLD RA+TF A K V VNV VIG H+G VTI+PL SQ
Sbjct: 1 TTLDTARARTFLAEKFGVDPRSVNVYVIGEHSGTQFPDWSHAKVTIIPLISQVKENLK-D 59
Query: 177 SDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGV--PDIVECT 234
+D E++ L +R Q+ G EV+EAKAG S T SMAYA A A A L G GV +
Sbjct: 60 TDWELEELIERVQNAGYEVIEAKAG--STTYSMAYAAARIAKAILRGTGGVLSVGVYLDG 117
Query: 235 FVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFA 292
+ + +F+ V LGK+G ++V+ + PL+D+E++ LE ELK IEKG F
Sbjct: 118 YYG--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 = 158 bits (403), Expect = 8e-47
Identities = 97/288 (33%), Positives = 142/288 (49%), Gaps = 49/288 (17%)
Query: 12 LYDIA-NTP-GVAADVSH----INSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPRKPGM 65
L DI P G A D+S + S +V G E + GSDVV+I AG+PRKPGM
Sbjct: 27 LLDIVEGLPQGKALDISQAAPILGSDTKVTGTNDYEDI----AGSDVVVITAGIPRKPGM 82
Query: 66 TRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKLFG 125
+RDDL NA IVK + I Y P+A+V +++NP++ V KA + ++ G
Sbjct: 83 SRDDLLGTNAKIVKEVAENIKKYAPNAIVIVVTNPLDVMT----YVAYKASGFPRNRVIG 138
Query: 126 V-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT----PKSNNLSDEE 180
+ LD R + F A ++ V V +V V+GGH G T++PL +T P + ++ EE
Sbjct: 139 MAGVLDSARFRYFIAEELGVSVKDVQAMVLGGH-GDTMVPLPRYSTVGGIPLTELITKEE 197
Query: 181 IKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLM-------------GLNGV 227
I + +RT++GG E+V GSA + A A A +A L G G+
Sbjct: 198 IDEIVERTRNGGAEIVNLL-KTGSAYYAPAAAIAEMVEAILKDKKRVLPCSAYLEGEYGI 256
Query: 228 PDIVECTFVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLE 275
DI F V LGKNG ++++ L L+D EK+ +
Sbjct: 257 KDI--------------FVGVPVVLGKNGVEKIIEL-DLTDEEKEAFD 289
>gnl|CDD|180477 PRK06223, PRK06223, malate dehydrogenase; Reviewed.
Length = 307
Score = 158 bits (402), Expect = 1e-46
Identities = 96/287 (33%), Positives = 146/287 (50%), Gaps = 47/287 (16%)
Query: 12 LYDIA-NTP-GVAADVSHINSPAQVEGYAGEEQLG---KALEGSDVVIIPAGVPRKPGMT 66
L+DI P G A D++ A VEG+ + + + GSDVV+I AGVPRKPGM+
Sbjct: 31 LFDIVEGVPQGKALDIAE---AAPVEGFDTKITGTNDYEDIAGSDVVVITAGVPRKPGMS 87
Query: 67 RDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKLFGV 126
RDDL INA I+K + I Y P A+V +++NPV++ +A K + + ++ G+
Sbjct: 88 RDDLLGINAKIMKDVAEGIKKYAPDAIVIVVTNPVDAMTYVA----LKESGFPKNRVIGM 143
Query: 127 TT-LDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT----PKSNNLSDEEI 181
LD R +TF A ++NV V +V V+GGH G +++PL +T P + LS E++
Sbjct: 144 AGVLDSARFRTFIAEELNVSVKDVTAFVLGGH-GDSMVPLVRYSTVGGIPLEDLLSKEKL 202
Query: 182 KALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADA----------CLMGLN---GVP 228
+ +RT+ GG E+V GSA + A + A +A C L GV
Sbjct: 203 DEIVERTRKGGAEIVGLL-KTGSAYYAPAASIAEMVEAILKDKKRVLPCSAYLEGEYGVK 261
Query: 229 DIVECTFVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLE 275
D+ + V+LGKNG ++++ L L D EK +
Sbjct: 262 DV--------------YVGVPVKLGKNGVEKIIEL-ELDDEEKAAFD 293
>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 = 148 bits (375), Expect = 1e-44
Identities = 55/127 (43%), Positives = 73/127 (57%), Gaps = 6/127 (4%)
Query: 1 MKLDPLVSSLSLYDIA--NTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAG 58
+ L L L L DI GVA D+SH ++ V G G + +AL+ +DVV+I AG
Sbjct: 20 LALQGLADELVLVDINKDKAEGVAMDLSHGSTFLSVPGIVGGDD-YEALKDADVVVITAG 78
Query: 59 VPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTY 118
VPRKPGMTR DL N NAGI K + AIA P A+V ++SNPV+ IA +V +G
Sbjct: 79 VPRKPGMTRLDLLNRNAGIFKDIVPAIAKSAPDAIVLVVSNPVDILTYIAWKV---SGLP 135
Query: 119 DEKKLFG 125
E+ +
Sbjct: 136 PERVIGS 142
>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 = 118 bits (299), Expect = 5e-32
Identities = 57/168 (33%), Positives = 83/168 (49%), Gaps = 7/168 (4%)
Query: 6 LVSSLSLYDI--ANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPRKP 63
L L LYDI GVA D+ P + + +A + +DVVII AGV RKP
Sbjct: 25 LAIELVLYDIDEEKLKGVAMDLQDAVEPLADIKVSITDDPYEAFKDADVVIITAGVGRKP 84
Query: 64 GMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKL 123
GM R DL N IVK + I Y P A + ++SNPV+ I + + ++K+
Sbjct: 85 GMGRLDLLKRNVPIVKEIGDNIEKYSPDAWIIVVSNPVD----IITYLVWRYSGLPKEKV 140
Query: 124 FGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATP 171
G+ TLD +R + A K+ V +V V ++G H G + +P +S
Sbjct: 141 IGLGTLDPIRFRRILAEKLGVDPDDVKVYILGEHGG-SQVPDWSTVRI 187
>gnl|CDD|173409 PTZ00117, PTZ00117, malate dehydrogenase; Provisional.
Length = 319
Score = 120 bits (302), Expect = 7e-32
Identities = 87/278 (31%), Positives = 134/278 (48%), Gaps = 30/278 (10%)
Query: 12 LYDI-ANTP-GVAADVSH----INSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPRKPGM 65
LYD+ P G A D+ H + S + G E ++ SDVV+I AGV RK M
Sbjct: 34 LYDVIKGVPQGKALDLKHFSTLVGSNINILGTNNYE----DIKDSDVVVITAGVQRKEEM 89
Query: 66 TRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKLFG 125
TR+DL IN I+KS+ ++ YCP+A V ++NP++ +VF++ K+ G
Sbjct: 90 TREDLLTINGKIMKSVAESVKKYCPNAFVICVTNPLD----CMVKVFQEKSGIPSNKICG 145
Query: 126 VT-TLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT---------PKSNN 175
+ LD R + A K+ V +V+ VIGGH G ++PL T K
Sbjct: 146 MAGVLDSSRFRCNLAEKLGVSPGDVSAVVIGGH-GDLMVPLPRYCTVNGIPLSDFVKKGA 204
Query: 176 LSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGV-PDIVECT 234
++++EI + K+T++ G E+V+ KGSA + A A +A L V V
Sbjct: 205 ITEKEINEIIKKTRNMGGEIVKL-LKKGSAFFAPAAAIVAMIEAYLKDEKRVLVCSVYLN 263
Query: 235 FVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQ 272
Q + L F V +G G ++V+ L L+ EK+
Sbjct: 264 G-QYNCKNL-FVGVPVVIGGKGIEKVIEL-ELNAEEKE 298
>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 = 113 bits (284), Expect = 1e-29
Identities = 72/230 (31%), Positives = 118/230 (51%), Gaps = 9/230 (3%)
Query: 49 GSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIA 108
SD+V+I AG+PRKPGM+R+DL ++NAGIV+ + I + P+ ++ ++SNP+++ +A
Sbjct: 69 NSDIVVITAGLPRKPGMSREDLLSMNAGIVREVTGRIMEHSPNPIIVVVSNPLDAMTYVA 128
Query: 109 AEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTI-LPLFS 167
+ K+G E+ + LD R +TF A ++ V V +V V+GGH + L +S
Sbjct: 129 WQ---KSGFPKERVIGQAGVLDSARFRTFIAMELGVSVQDVTACVLGGHGDAMVPLVRYS 185
Query: 168 QAT--PKSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLN 225
P ++ +S E I + +RT+ GG E+V +GSA + A + +A L
Sbjct: 186 TVAGIPVADLISAERIAEIVERTRKGGGEIVNL-LKQGSAYYAPAASVVEMVEAILKDRK 244
Query: 226 GVPDIVECTFVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLE 275
V Q + + + V LGKNG + + L L E L
Sbjct: 245 RVLPCAAYLDGQYGIDGI-YVGVPVILGKNGVEHIYEL-KLDQSELALLN 292
>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 = 107 bits (269), Expect = 2e-27
Identities = 78/288 (27%), Positives = 130/288 (45%), Gaps = 30/288 (10%)
Query: 1 MKLDPLVSSLSLYDI--ANTPGVAADVSHINSPAQVEGYAGEEQLGKALE---GSDVVII 55
+ L S L L D+ G A D+SH A G G +D+V+I
Sbjct: 17 LIAKGLASELVLVDVNEEKAKGDALDLSH----ASAFLATGTIVRGGDYADAADADIVVI 72
Query: 56 PAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKA 115
AG PRKPG TR DL N NA I++S+ T + Y P A++ ++SNPV+ I V +K
Sbjct: 73 TAGAPRKPGETRLDLINRNAPILRSVITNLKKYGPDAIILVVSNPVD----ILTYVAQKL 128
Query: 116 GTYDEKKLFGV-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT---- 170
+ ++ G T LD R ++ A K++V V+ V+G H G + + +S AT
Sbjct: 129 SGLPKNRVIGSGTLLDSARFRSLLAEKLDVDPQSVHAYVLGEH-GDSQVVAWSTATVGGL 187
Query: 171 --PKSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVP 228
+ + +++A+ + + G E++ KG+ +A A A + L+ V
Sbjct: 188 PLEELAPFTKLDLEAIEEEVRTSGYEIIR---LKGATNYGIATAIADIVKSILLDERRV- 243
Query: 229 DIVECTFVQSSVTELP--FFASKVRLGKNGADEVLGLGPLSDYEKQGL 274
+ + VQ + + +G+ G +L PL++ E+ L
Sbjct: 244 --LPVSAVQEGQYGIEDVALSVPAVVGREGVVRIL-EIPLTEDEEAKL 288
>gnl|CDD|173376 PTZ00082, PTZ00082, L-lactate dehydrogenase; Provisional.
Length = 321
Score = 101 bits (253), Expect = 6e-25
Identities = 79/231 (34%), Positives = 120/231 (51%), Gaps = 31/231 (13%)
Query: 12 LYDIA-NTP-GVAADVSHINSPA----QVEGYAGEEQLGKALEGSDVVIIPAGVPRKPGM 65
L+DI N P G A D+SH N A +V G E + GSDVVI+ AG+ ++PG
Sbjct: 35 LFDIVKNIPQGKALDISHSNVIAGSNSKVIGTNNYEDI----AGSDVVIVTAGLTKRPGK 90
Query: 66 T-----RDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDE 120
+ RDDL +NA I+ + I YCP+A V +I+NP++ V ++ ++ +
Sbjct: 91 SDKEWNRDDLLPLNAKIMDEVAEGIKKYCPNAFVIVITNPLDVMV----KLLQEHSGLPK 146
Query: 121 KKLFGVT-TLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT----P---- 171
K+ G+ LD R +T+ A K+ V +V+ VIG H G ++PL T P
Sbjct: 147 NKVCGMAGVLDSSRLRTYIAEKLGVNPRDVHASVIGAH-GDKMVPLPRYVTVGGIPLSEF 205
Query: 172 -KSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACL 221
K ++ EEI + +RT++ G E+V+ G GSA + A A A+A L
Sbjct: 206 IKKGLITQEEIDEIVERTRNTGKEIVDL-LGTGSAYFAPAAAAIEMAEAYL 255
>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 = 95.5 bits (238), Expect = 7e-23
Identities = 55/160 (34%), Positives = 89/160 (55%), Gaps = 12/160 (7%)
Query: 49 GSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIA 108
GSD+VII AGVPRK GM+R DL NA IVK IA + P + +++NPV+ A
Sbjct: 72 GSDIVIITAGVPRKEGMSRLDLAKKNAKIVKKYAKQIAEFAPDTKILVVTNPVDVMTYKA 131
Query: 109 AEVFKKAGTYDEKKLFGVTT-LDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFS 167
K++G +D+ ++FG+ T LD +R K A NV ++EV+ +IG H G +++PL S
Sbjct: 132 ---LKESG-FDKNRVFGLGTHLDSLRFKVAIAKHFNVHISEVHTRIIGEH-GDSMVPLIS 186
Query: 168 QAT------PKSNNLSDEEIKALTKRTQDGGTEVVEAKAG 201
+ + D +++ + + ++ G ++ K G
Sbjct: 187 STSIGGIPIKRFPEYKDFDVEKIVETVKNAGQNIISLKGG 226
>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 = 92.1 bits (230), Expect = 1e-21
Identities = 81/309 (26%), Positives = 131/309 (42%), Gaps = 53/309 (17%)
Query: 6 LVSSLSLYDI--ANTPGVAADVSHI--NSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPR 61
+ L L DI G A D+ P+ V+ AG+ + +D+V+I AG P+
Sbjct: 24 IADELVLIDINEEKAEGEALDLEDALAFLPSPVKIKAGDY---SDCKDADIVVITAGAPQ 80
Query: 62 KPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEK 121
KPG TR DL NA I+KS+ I + + SNPV+ + V +K +
Sbjct: 81 KPGETRLDLLEKNAKIMKSIVPKIKASGFDGIFLVASNPVD----VITYVVQKLSGLPKN 136
Query: 122 KLFGV-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT---------P 171
++ G T+LD R + A K+NV V+ V+G H G + +S T
Sbjct: 137 RVIGTGTSLDTARLRRALAEKLNVDPRSVHAYVLGEH-GDSQFVAWSTVTVGGKPLLDLL 195
Query: 172 KSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGS-----ATLSMAYAGAVFAD-------- 218
K LS+ ++ + + + G E++ GKG+ AT A+ D
Sbjct: 196 KEGKLSELDLDEIEEDVRKAGYEIIN---GKGATYYGIATALARIVKAILNDENAILPVS 252
Query: 219 ACLMGLNGVPDIVECTFVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLK 278
A L G G D+ + +G+NG +EV+ L L++ E++ E
Sbjct: 253 AYLDGEYGEKDV--------------YIGVPAIIGRNGVEEVIEL-DLTEEEQEKFEKSA 297
Query: 279 PELKASIEK 287
+K +I+K
Sbjct: 298 DIIKENIKK 306
>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 = 87.5 bits (218), Expect = 5e-20
Identities = 84/311 (27%), Positives = 132/311 (42%), Gaps = 58/311 (18%)
Query: 6 LVSSLSLYDI--ANTPGVAADVSHINSP--AQVEGYAGEEQLGKALEGSDVVIIPAGVPR 61
L S + L DI A G A D++H +P V YAG+ +G+DVV+I AG +
Sbjct: 24 LASEIVLVDINKAKAEGEAMDLAH-GTPFVKPVRIYAGDY---ADCKGADVVVITAGANQ 79
Query: 62 KPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEK 121
KPG TR DL N I K + I Y P A++ +++NPV+ + V K
Sbjct: 80 KPGETRLDLLKRNVAIFKEIIPQILKYAPDAILLVVTNPVD----VLTYVAYKLSGLPPN 135
Query: 122 KLFGV-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT---------- 170
++ G T LD R + + V V+ +IG H G + + ++S A
Sbjct: 136 RVIGSGTVLDTARFRYLLGEHLGVDPRSVHAYIIGEH-GDSEVAVWSSANIGGVPLDEFC 194
Query: 171 -PKSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPD 229
+E + + + ++ E++E KG AT YA + +
Sbjct: 195 KLCGRPFDEEVREEIFEEVRNAAYEIIE---RKG-AT---YYAIGL----------ALAR 237
Query: 230 IVECTF--------VQSSVTELPFFASKVRL------GKNGADEVLGLGPLSDYEKQGLE 275
IVE V SS+ + + V L G++G + VL PLS+ E++ L
Sbjct: 238 IVEAILRDENSVLTV-SSLLDGQYGIKDVALSLPCIVGRSGVERVLPP-PLSEEEEEALR 295
Query: 276 SLKPELKASIE 286
+ LK +IE
Sbjct: 296 ASAEVLKEAIE 306
>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 = 87.3 bits (217), Expect = 5e-20
Identities = 66/262 (25%), Positives = 120/262 (45%), Gaps = 26/262 (9%)
Query: 25 VSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTA 84
S + +P ++ +G+ + +D+V+I AG P+KPG TR +L N I+KS+
Sbjct: 45 ASFLPTPKKI--RSGDY---SDCKDADLVVITAGAPQKPGETRLELVGRNVRIMKSIVPE 99
Query: 85 IANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKLFGV-TTLDVVRAKTFYAGKVN 143
+ + + +NPV+ I V K + + ++ G T LD R + A K+
Sbjct: 100 VVKSGFDGIFLVATNPVD----ILTYVAWKLSGFPKNRVIGSGTVLDTARLRYLLAEKLG 155
Query: 144 VPVAEVNVPVIGGHAGVTILPLFSQAT----------PKSNNLSDEEIKALTKRTQDGGT 193
V V+ +IG H G + +P++S AT +D +++ + K +D
Sbjct: 156 VDPQSVHAYIIGEH-GDSEVPVWSSATIGGVPLLDYLKAKGTETDLDLEEIEKEVRDAAY 214
Query: 194 EVVEAKAGKGSATLSMAYAGAVFADACLMGLNGVPDIVECTFVQSSVTELPFFASKVRLG 253
E++ KG+ + A A +A L N V + + + ++ + LG
Sbjct: 215 EIIN---RKGATYYGIGMAVARIVEAILHDENRVLPVSAYLDGEYGIKDV-YIGVPAVLG 270
Query: 254 KNGADEVLGLGPLSDYEKQGLE 275
+NG +E++ L PLSD EK+ +
Sbjct: 271 RNGVEEIIEL-PLSDEEKEAFQ 291
>gnl|CDD|178836 PRK00066, ldh, L-lactate dehydrogenase; Reviewed.
Length = 315
Score = 78.0 bits (193), Expect = 2e-16
Identities = 80/314 (25%), Positives = 129/314 (41%), Gaps = 63/314 (20%)
Query: 6 LVSSLSLYDIA--NTPGVAADVSHINSPA-QVEGYAGEEQLGKALEGSDVVIIPAGVPRK 62
+ L + DI G A D+SH + YAG+ K +D+V+I AG P+K
Sbjct: 30 IADELVIIDINKEKAEGDAMDLSHAVPFTSPTKIYAGDYSDCK---DADLVVITAGAPQK 86
Query: 63 PGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKK 122
PG TR DL N I KS+ + + + SNPV+ I K + +++
Sbjct: 87 PGETRLDLVEKNLKIFKSIVGEVMASGFDGIFLVASNPVD----ILTYATWKLSGFPKER 142
Query: 123 LFGV-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT----------P 171
+ G T+LD R + + K++V V+ +IG H G T P++S A
Sbjct: 143 VIGSGTSLDSARFRYMLSEKLDVDPRSVHAYIIGEH-GDTEFPVWSHANVAGVPLEEYLE 201
Query: 172 KSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGAVFA-----DACL----- 221
++ +E++ + + +D E++E K G ++MA A A +A L
Sbjct: 202 ENEQYDEEDLDEIFENVRDAAYEIIEKK-GATYYGIAMALARITKAILNNENAVLPVSAY 260
Query: 222 ----MGLN----GVPDIVECTFVQSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQG 273
G GVP +V +NG E++ L PL+D EKQ
Sbjct: 261 LEGQYGEEDVYIGVPAVV---------------------NRNGIREIVEL-PLNDDEKQK 298
Query: 274 LESLKPELKASIEK 287
LK +++
Sbjct: 299 FAHSADVLKEIMDE 312
>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 = 75.8 bits (187), Expect = 8e-16
Identities = 56/178 (31%), Positives = 76/178 (42%), Gaps = 17/178 (9%)
Query: 46 ALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHALVNMISNPVNST 104
A + DV I+ PRKPGM R DL NA I K A+ P V ++ NP N+
Sbjct: 73 AFKDVDVAILVGAFPRKPGMERADLLRKNAKIFKEQGEALNKVAKPTVKVLVVGNPANTN 132
Query: 105 VPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEV-NVPVIGGHAGVTIL 163
IA K A K +T LD RAK A K+ V V++V NV + G H+ T +
Sbjct: 133 ALIAL---KNAPNLPPKNFTALTRLDHNRAKAQVARKLGVRVSDVKNVIIWGNHSN-TQV 188
Query: 164 PLFSQATPKSNN--------LSDEEIK-ALTKRTQDGGTEVVEAKAGKGSATLSMAYA 212
P S A L +E + K Q G +++ + S+ S A A
Sbjct: 189 PDLSNAVVYGPGGTEWVLDLLDEEWLNDEFVKTVQKRGAAIIKKR--GASSAASAAKA 244
>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 = 68.5 bits (168), Expect = 3e-13
Identities = 56/174 (32%), Positives = 77/174 (44%), Gaps = 12/174 (6%)
Query: 46 ALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHALVNMISNPVNST 104
A + D ++ PRKPGM R DL + N I K A+ V ++ NP N+
Sbjct: 76 AFKDVDAALLVGAFPRKPGMERADLLSKNGKIFKEQGKALNKVAKKDVKVLVVGNPANTN 135
Query: 105 VPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILP 164
IA+ K A K +T LD RAK A K VPV++V +I G+ T +P
Sbjct: 136 ALIAS---KNAPDIPPKNFSAMTRLDHNRAKYQLAAKAGVPVSDVKNVIIWGNHSNTQVP 192
Query: 165 LFSQAT----PKSNNLSDEE--IKALTKRTQDGGTEVVEAKAGKGSATLSMAYA 212
F+ AT P + D++ Q G V+EA+ G SA S A A
Sbjct: 193 DFTHATVDGRPVKEVIKDDKWLEGEFIPTVQQRGAAVIEAR-GASSA-ASAANA 244
>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 = 66.1 bits (162), Expect = 2e-12
Identities = 58/183 (31%), Positives = 85/183 (46%), Gaps = 26/183 (14%)
Query: 46 ALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHALVNMISNPVNST 104
A + DV I+ +PRK GM R DL N I K A+ Y + V ++ NP N+
Sbjct: 75 AFKDVDVAILVGAMPRKEGMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGNPANTN 134
Query: 105 VPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEV-NVPVIGGHAGVTIL 163
I K A + ++ +T LD RAK+ A K+ VPV++V NV + G H+ T
Sbjct: 135 ALILL---KYAPSIPKENFTALTRLDHNRAKSQIALKLGVPVSDVKNVIIWGNHSS-TQY 190
Query: 164 PLFSQATPKSNN--------------LSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSM 209
P + AT + N L+ E I + KR G V++A+ K S+ +S
Sbjct: 191 PDVNHATVELNGKGKPAREAVKDDAWLNGEFISTVQKR----GAAVIKAR--KLSSAMSA 244
Query: 210 AYA 212
A A
Sbjct: 245 AKA 247
>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 = 65.0 bits (159), Expect = 4e-12
Identities = 51/174 (29%), Positives = 74/174 (42%), Gaps = 20/174 (11%)
Query: 6 LVSSLSLYDIANTPGVAA----DVSHINS---PAQVEGYAGEEQLGKALEGSDVVIIPAG 58
L S + L D+ GVA D H + + AG+ +D+++I AG
Sbjct: 23 LFSEIVLIDV--NEGVAEGEALDFHHATALTYSTNTKIRAGDYD---DCADADIIVITAG 77
Query: 59 VPRKPGMT--RDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAG 116
PG T R DL NA I++ + I A++ +I+NP++ V IAA F
Sbjct: 78 PSIDPGNTDDRLDLAQTNAKIIREIMGNITKVTKEAVIILITNPLDIAVYIAATEFD--- 134
Query: 117 TYDEKKLFGV-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQA 169
Y K+ G T LD R + A K V V V+G H G P++S
Sbjct: 135 -YPANKVIGTGTMLDTARLRRIVADKYGVDPKNVTGYVLGEH-GSHAFPVWSLV 186
>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 = 64.9 bits (158), Expect = 5e-12
Identities = 49/194 (25%), Positives = 77/194 (39%), Gaps = 10/194 (5%)
Query: 34 VEGYAGEEQLGKALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHA 92
+ G +L +A + D + A VP KPG R DL N I K+ A++ Y P
Sbjct: 45 LAGTIVTTKLEEAFKDIDCAFLVASVPLKPGEVRADLLTKNTPIFKATGEALSEYAKPTV 104
Query: 93 LVNMISNPVNSTVPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVP 152
V +I NPVN+ +A A + + LD RA + A K+ VPV +
Sbjct: 105 KVLVIGNPVNTNCLVA---MLHAPKLSAENFSSLCMLDHNRAVSRIASKLKVPVDHIYHV 161
Query: 153 VIGGHAGVTILPLFSQATPKSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSM--- 209
V+ G+ +++ + A N + L + + + E A + L M
Sbjct: 162 VVWGNHAESMVADLTHAEFTKNGKHQKVFDELCRDYPEP--DFFEVIAQRAWKILEMRGF 219
Query: 210 -AYAGAVFADACLM 222
+ A V A M
Sbjct: 220 TSAASPVKASLQHM 233
>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 = 63.4 bits (155), Expect = 1e-11
Identities = 65/258 (25%), Positives = 107/258 (41%), Gaps = 47/258 (18%)
Query: 44 GKALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNS 103
S VVI+ AG + G +R DL N I K + + Y P+A++ ++SNPV+
Sbjct: 66 YSVTANSKVVIVTAGARQNEGESRLDLVQRNVDIFKGIIPKLVKYSPNAILLVVSNPVD- 124
Query: 104 TVPIAAEVFKKAGTYDEKKLFGV-TTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTI 162
I V K + ++ G LD R + A ++ V + V+ +IG H G +
Sbjct: 125 ---IMTYVAWKLSGLPKHRVIGSGCNLDSARFRYLIAERLGVAPSSVHGWIIGEH-GDSS 180
Query: 163 LPLFSQATPKSNNLSD-----------EEIKALTKRTQDGGTEVVEAKAGKGSATLSMAY 211
+P++S L D E+ K + K+ D EV+ KG + ++
Sbjct: 181 VPVWSGVNVAGVRLQDLNPDIGTDKDPEKWKEVHKQVVDSAYEVI---KLKGYTSWAIGL 237
Query: 212 AGAVFADA-------------CLMGLNGVPDIVECTFVQSSVTELPFFASKVRLGKNGAD 258
+ A DA + GL+G+ D V LP LG+NG
Sbjct: 238 SVADLVDAILRNTGRVHSVSTLVKGLHGIEDEV--------FLSLP-----CILGENGIT 284
Query: 259 EVLGLGPLSDYEKQGLES 276
V+ PL++ E++ L+
Sbjct: 285 HVIKQ-PLTEEEQEKLQK 301
>gnl|CDD|177744 PLN00135, PLN00135, malate dehydrogenase.
Length = 309
Score = 61.3 bits (149), Expect = 7e-11
Identities = 52/183 (28%), Positives = 89/183 (48%), Gaps = 24/183 (13%)
Query: 45 KALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHALVNMISNPVNS 103
+A +G ++ ++ G PRK GM R D+ + N I KS +A+ + P V +++NP N+
Sbjct: 54 EACKGVNIAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAPDCKVLVVANPANT 113
Query: 104 TVPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTIL 163
I E A + EK + +T LD RA + ++ VPV++V +I G+ T
Sbjct: 114 NALILKEF---APSIPEKNITCLTRLDHNRALGQISERLGVPVSDVKNVIIWGNHSSTQY 170
Query: 164 PLFSQATPKSNN--------------LSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSM 209
P + AT K+ + L+ E I + +R G +++A+ K S+ LS
Sbjct: 171 PDVNHATVKTPSGEKPVRELVADDAWLNGEFITTVQQR----GAAIIKAR--KLSSALSA 224
Query: 210 AYA 212
A +
Sbjct: 225 ASS 227
>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 = 61.4 bits (150), Expect = 7e-11
Identities = 49/168 (29%), Positives = 73/168 (43%), Gaps = 13/168 (7%)
Query: 46 ALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHALVNMISNPVNST 104
A + +D ++ PR PGM R DL N I + A+ + V ++ NP N+
Sbjct: 75 AFKDADWALLVGAKPRGPGMERADLLKANGKIFTAQGKALNDVASRDVKVLVVGNPCNTN 134
Query: 105 VPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEV-NVPVIGGHAGVTIL 163
IA K A +T LD RAK+ A K VPV +V N+ + G H+ T
Sbjct: 135 ALIAM---KNAPDIPPDNFTAMTRLDHNRAKSQLAKKAGVPVTDVKNMVIWGNHSP-TQY 190
Query: 164 PLFSQAT----PKSNNLSDEE--IKALTKRTQDGGTEVVEAKAGKGSA 205
P F+ AT P + ++D Q G +++A+ G SA
Sbjct: 191 PDFTNATIGGKPAAEVINDRAWLEDEFIPTVQKRGAAIIKAR-GASSA 237
>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 = 60.6 bits (147), Expect = 1e-10
Identities = 40/131 (30%), Positives = 56/131 (42%), Gaps = 6/131 (4%)
Query: 46 ALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYC-PHALVNMISNPVNST 104
A DV I+ PRK GM R DL + N I K A+ V ++ NP N+
Sbjct: 72 AFTDVDVAILVGAFPRKEGMERRDLLSKNVKIFKEQGRALDKLAKKDCKVLVVGNPANTN 131
Query: 105 VPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEV-NVPVIGGHAGVTIL 163
+ + A + K +T LD RA A + VPV++V NV + G H+ T
Sbjct: 132 ALVLSNY---APSIPPKNFSALTRLDHNRALAQVAERAGVPVSDVKNVIIWGNHSS-TQY 187
Query: 164 PLFSQATPKSN 174
P + AT
Sbjct: 188 PDVNHATVTKG 198
>gnl|CDD|235468 PRK05442, PRK05442, malate dehydrogenase; Provisional.
Length = 326
Score = 60.2 bits (147), Expect = 2e-10
Identities = 52/173 (30%), Positives = 76/173 (43%), Gaps = 21/173 (12%)
Query: 45 KALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAI-ANYCPHALVNMISNPVNS 103
A + +DV ++ PR PGM R DL N I + A+ V ++ NP N+
Sbjct: 76 VAFKDADVALLVGARPRGPGMERKDLLEANGAIFTAQGKALNEVAARDVKVLVVGNPANT 135
Query: 104 TVPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEV-NVPVIGGHAGVTI 162
IA K A + +T LD RA + A K VPVA++ + V G H+ T
Sbjct: 136 NALIAM---KNAPDLPAENFTAMTRLDHNRALSQLAAKAGVPVADIKKMTVWGNHSA-TQ 191
Query: 163 LPLFSQAT----PKSNNLSDEE------IKALTKRTQDGGTEVVEAKAGKGSA 205
P F AT P + ++D+ I + KR G ++EA+ G SA
Sbjct: 192 YPDFRHATIDGKPAAEVINDQAWLEDTFIPTVQKR----GAAIIEAR-GASSA 239
>gnl|CDD|178212 PLN02602, PLN02602, lactate dehydrogenase.
Length = 350
Score = 54.4 bits (131), Expect = 2e-08
Identities = 54/241 (22%), Positives = 102/241 (42%), Gaps = 24/241 (9%)
Query: 48 EGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNSTVPI 107
GSD+ I+ AG + PG +R +L N + + + +A Y P ++ ++SNPV+ +
Sbjct: 104 AGSDLCIVTAGARQIPGESRLNLLQRNVALFRKIIPELAKYSPDTILLIVSNPVDVLTYV 163
Query: 108 AAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGH---------- 157
A +K +G + + T LD R + A ++V +V ++G H
Sbjct: 164 A---WKLSGFPANRVIGSGTNLDSSRFRFLIADHLDVNAQDVQAYIVGEHGDSSVALWSS 220
Query: 158 ---AGVTILPLFSQATPKSNNLSDEEIKALTKRTQDGGTEVVEAKAGKGSATLSMAYAGA 214
GV +L + + E ++ + + D EV++ KG + ++ Y+ A
Sbjct: 221 VSVGGVPVLSFLEK---QQIAYEKETLEEIHRAVVDSAYEVIKL---KGYTSWAIGYSVA 274
Query: 215 VFADACLMGLNGVPDIVECTFVQSSVTELPFFAS-KVRLGKNGADEVLGLGPLSDYEKQG 273
+ L + + + E F S +LG+NG V+ + L+D E +
Sbjct: 275 SLVRSLLRDQRRIHPVSVLAKGFHGIDEGDVFLSLPAQLGRNGVLGVVNV-HLTDEEAER 333
Query: 274 L 274
L
Sbjct: 334 L 334
>gnl|CDD|215060 PLN00112, PLN00112, malate dehydrogenase (NADP); Provisional.
Length = 444
Score = 45.2 bits (107), Expect = 2e-05
Identities = 46/146 (31%), Positives = 65/146 (44%), Gaps = 12/146 (8%)
Query: 60 PRKPGMTRDDLFNINAGIV----KSLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKA 115
PR PGM R DL +IN I K+L +A+ + V ++ NP N+ I K A
Sbjct: 187 PRGPGMERADLLDINGQIFAEQGKAL-NEVAS--RNVKVIVVGNPCNTNALIC---LKNA 240
Query: 116 GTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQATPKSNN 175
K +T LD RAK A K V +V+ I G+ T +P F A K N
Sbjct: 241 PNIPAKNFHALTRLDENRAKCQLALKAGVFYDKVSNVTIWGNHSTTQVPDFLNA--KING 298
Query: 176 LSDEEIKALTKRTQDGGTEVVEAKAG 201
L +E+ K ++ T V+ + G
Sbjct: 299 LPVKEVITDHKWLEEEFTPKVQKRGG 324
>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 = 39.6 bits (92), Expect = 0.001
Identities = 40/127 (31%), Positives = 53/127 (41%), Gaps = 10/127 (7%)
Query: 47 LEGSDVVIIPAGVPRKPGMTRDDLFNINAGIV----KSLCTAIANYCPHALVNMISNPVN 102
E +D ++ PR PGM R DL +IN I K+L + C V ++ NP N
Sbjct: 118 FEDADWALLIGAKPRGPGMERADLLDINGQIFADQGKALNAVASKNCK---VLVVGNPCN 174
Query: 103 STVPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTI 162
+ IA K A K +T LD RAK A K V+ I G+ T
Sbjct: 175 TNALIA---MKNAPNIPRKNFHALTRLDENRAKCQLALKSGKFYTSVSNVTIWGNHSTTQ 231
Query: 163 LPLFSQA 169
+P F A
Sbjct: 232 VPDFVNA 238
>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 = 35.6 bits (83), Expect = 0.024
Identities = 28/124 (22%), Positives = 44/124 (35%), Gaps = 35/124 (28%)
Query: 8 SSLSLYDI----ANTPGVAAD--VSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPR 61
S+++L DI T + A V + +P ++E +AL+G+D VI V
Sbjct: 30 STIALMDIDEERLETVEILAKKIVEELGAPLKIEATT---DRREALDGADFVINTIQVGG 86
Query: 62 KPGMTRDDLFNINA---------------GIVKSL---------CTAIANYCPHALVNMI 97
D F I GI ++L I CP A +
Sbjct: 87 HEYTETD--FEIPEKYGYYQTVGDTSGPGGIFRALRTIPVLLDIARDIEELCPDAWLLNY 144
Query: 98 SNPV 101
+NP+
Sbjct: 145 ANPM 148
>gnl|CDD|192778 pfam11582, DUF3240, Protein of unknown function (DUF3240). This
family of proteins with unknown function appears to be
restricted to Proteobacteria.
Length = 101
Score = 30.0 bits (68), Expect = 0.43
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 1 MKLDPLVSSLSLYDIANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDV 52
++L VS +L + A G + + QV GY ++ L +D+
Sbjct: 23 IELTDAVSGFTLLEAA---GHGREHALFTIAEQVRGYRDMVKVEIVLPEADL 71
>gnl|CDD|240641 cd12164, GDH_like_2, Putative glycerate dehydrogenase and related
proteins of the D-specific 2-hydroxy dehydrogenase
family. This group contains a variety of proteins
variously identified as glycerate dehydrogenase (GDH,
also known as hydroxypyruvate reductase) and other
enzymes of the 2-hydroxyacid dehydrogenase family. GDH
catalyzes the reversible reaction of (R)-glycerate +
NAD+ to hydroxypyruvate + NADH + H+. 2-hydroxyacid
dehydrogenases catalyze the conversion of a wide variety
of D-2-hydroxy acids to their corresponding keto acids.
The general mechanism is (R)-lactate + acceptor to
pyruvate + reduced acceptor. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann-fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. While many members of
this family are dimeric, alanine DH is hexameric and
phosphoglycerate DH is tetrameric.
Length = 306
Score = 31.3 bits (72), Expect = 0.49
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 30 SPAQVEG---YAGEEQLGKALEGSDVVI 54
SP +EG + GEE L L +D+++
Sbjct: 164 SPKDIEGVTCFHGEEGLDAFLAQTDILV 191
>gnl|CDD|133174 cd05042, PTKc_Aatyk, Catalytic domain of the Protein Tyrosine
Kinases, Apoptosis-associated tyrosine kinases. Protein
Tyrosine Kinase (PTK) family; Apoptosis-associated
tyrosine kinase (Aatyk) subfamily; catalytic (c) domain.
The Aatyk subfamily is also referred to as the lemur
tyrosine kinase (Lmtk) subfamily. It consists of Aatyk1
(Lmtk1), Aatyk2 (Lmtk2, Brek), Aatyk3 (Lmtk3), and
similar proteins. The PTKc family is part of a larger
superfamily that includes the catalytic domains of other
kinases such as protein serine/threonine kinases, RIO
kinases, and phosphoinositide 3-kinase (PI3K). PTKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to tyrosine (tyr) residues in protein substrates.
Aatyk proteins are mostly receptor tyr kinases (RTKs)
containing a transmembrane segment and a long C-terminal
cytoplasmic tail with a catalytic domain. Aatyk1 does
not contain a transmembrane segment and is a cytoplasmic
(or nonreceptor) kinase. Aatyk proteins are classified
as tyr kinases based on overall sequence similarity and
the phylogenetic tree. However, analysis of catalytic
residues suggests that Aatyk proteins may be
multispecific kinases, functioning also as
serine/threonine kinases. They are involved in neural
differentiation, nerve growth factor (NGF) signaling,
apoptosis, and spermatogenesis.
Length = 269
Score = 31.4 bits (71), Expect = 0.52
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 159 GVTILPLFSQATPKSNNLSDEEIKALTKRTQD 190
GVT+ LF+ A +LSDE++ R QD
Sbjct: 196 GVTMWELFTAADQPYPDLSDEQVLKQVVREQD 227
>gnl|CDD|218565 pfam05346, DUF747, Eukaryotic membrane protein family. This family
is a family of eukaryotic membrane proteins. It was
previously annotated as including a putative receptor
for human cytomegalovirus gH but this has has since been
disputed. Analysis of the mouse Tapt1 protein
(transmembrane anterior posterior transformation 1) has
shown it to be involved in patterning of the vertebrate
axial skeleton.
Length = 320
Score = 29.6 bits (67), Expect = 1.9
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 80 SLCTAIANYCPHALVNMISNPVNSTVPIAAEVFKKAGTYDEKKLFGVTTLDVV 132
SL A+ +Y L ++SN I + VFKK +D++ LF +T DVV
Sbjct: 112 SLNVAVNSYSNALLTLLLSN---QFAEIKSSVFKK---FDKESLFQITCADVV 158
>gnl|CDD|79035 PRK12559, PRK12559, transcriptional regulator Spx; Provisional.
Length = 131
Score = 28.1 bits (62), Expect = 2.8
Identities = 8/35 (22%), Positives = 25/35 (71%)
Query: 166 FSQATPKSNNLSDEEIKALTKRTQDGGTEVVEAKA 200
+++ SN+++ +E+K++ + T++G TE++ ++
Sbjct: 27 YTEKNIVSNSMTVDELKSILRLTEEGATEIISTRS 61
>gnl|CDD|223936 COG1004, Ugd, Predicted UDP-glucose 6-dehydrogenase [Cell envelope
biogenesis, outer membrane].
Length = 414
Score = 28.7 bits (65), Expect = 3.4
Identities = 20/84 (23%), Positives = 34/84 (40%), Gaps = 12/84 (14%)
Query: 45 KALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISNPVNST 104
+A++ +DVV I G P + + V+++ I V ++ + ST
Sbjct: 72 EAVKDADVVFIAVGTPPDE------DGSADLSYVEAVAKDIGEILDGKAV-VV---IKST 121
Query: 105 VPI--AAEVFKKAGTYDEKKLFGV 126
VP+ EV K + K F V
Sbjct: 122 VPVGTTEEVRAKIREENSGKDFEV 145
>gnl|CDD|100021 cd02201, FtsZ_type1, FtsZ is a GTPase that is similar to the
eukaryotic tubulins and is essential for cell division
in prokaryotes. FtsZ is capable of polymerizing in a
GTP-driven process into structures similar to those
formed by tubulin. FtsZ forms a ring-shaped septum at
the site of bacterial cell division, which is required
for constriction of cell membrane and cell envelope to
yield two daughter cells.
Length = 304
Score = 28.2 bits (64), Expect = 5.8
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 40 EEQLGKALEGSDVVIIPAG 58
E++ +ALEG+D+V I AG
Sbjct: 75 REEIKEALEGADMVFITAG 93
>gnl|CDD|184785 PRK14668, uvrC, excinuclease ABC subunit C; Provisional.
Length = 577
Score = 28.2 bits (63), Expect = 5.8
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 16 ANTPGVAADVSHINSPAQVEGYAGEEQLGKALEGSDVVIIPAGVPRKPGMTRDDL 70
+ G AD I+ P ++EG+ G+A+ GS+V + G R L
Sbjct: 360 DDEVGALADALGIDRPERIEGFDVSHAQGRAVVGSNVCFV-DGSAETADYRRKKL 413
>gnl|CDD|234367 TIGR03828, pfkB, 1-phosphofructokinase. This enzyme acts in
concert with the fructose-specific phosphotransferase
system (PTS) which imports fructose as
fructose-1-phosphate. The action of
1-phosphofructokinase results in
beta-D-fructose-1,6-bisphosphate and is an entry point
into glycolysis (GenProp0688).
Length = 304
Score = 27.9 bits (63), Expect = 5.9
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 178 DEEIKALTKRTQDGGTEVVEA-----KAGKGSATLSMAYAGAVFADA 219
DEE++ L R E++EA G + +S+ GA+
Sbjct: 184 DEELEELFGRELKTLEEIIEAARELLDLGAENVLISLGADGALLVTK 230
>gnl|CDD|215344 PLN02640, PLN02640, glucose-6-phosphate 1-dehydrogenase.
Length = 573
Score = 28.1 bits (62), Expect = 6.1
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 189 QDGGTEVVEAKAGKGSATLSMAYAGA 214
QDG + E A KG +TLS+ GA
Sbjct: 71 QDGENHLTEEHAEKGESTLSITVVGA 96
>gnl|CDD|235020 PRK02264, PRK02264, N(5),N(10)-methenyltetrahydromethanopterin
cyclohydrolase; Provisional.
Length = 317
Score = 27.9 bits (63), Expect = 6.7
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 8/45 (17%)
Query: 109 AEVFKKAGTYD----EKKLFG---VTTLDVVRAKTFYAGKVNVPV 146
AE+FK+A YD + LF VT D+ KTF+AGK+N +
Sbjct: 265 AEIFKEAN-YDFYKIDPGLFAPAEVTVNDLDTGKTFHAGKLNPDL 308
>gnl|CDD|211958 TIGR04235, seadorna_VP4, seadornavirus VP4 protein. This protein
family occurs in the seadornavirus virus group, with
designation VP4 in Banna virus, Kadipiro virus, and Liao
ning virus. Although this family has been suggested to
resemble methyltransferases, members show apparent
N-terminal sequence similarity to the outer capsid
protein VP5 of the orbivirus group, such as bluetongue
virus, which also belong to the Reoviridae.
Length = 618
Score = 27.9 bits (62), Expect = 8.3
Identities = 15/87 (17%), Positives = 27/87 (31%), Gaps = 9/87 (10%)
Query: 100 PVNSTVPIAAEVFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVP-----VAEVNVPVI 154
PV ++ + ++ A +Y+ +G G N V + V
Sbjct: 284 PVQGSLGLVVQMMGDALSYNVFAQYGTLDSSGFGKTILSGGATNTALEGTRVVKFQTKVT 343
Query: 155 GGHAGVTILPLFSQATPKSNNLSDEEI 181
A + L S + LS E+
Sbjct: 344 AQQALAMTMALQS----AVSMLSQGEL 366
>gnl|CDD|179334 PRK01770, PRK01770, sec-independent translocase; Provisional.
Length = 171
Score = 27.1 bits (60), Expect = 8.4
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 270 EKQGLESLKPELKASIE 286
EK L +L PELKAS++
Sbjct: 67 EKASLTNLSPELKASVD 83
>gnl|CDD|214856 smart00852, MoCF_biosynth, Probable molybdopterin binding domain.
This domain is found a variety of proteins involved in
biosynthesis of molybdopterin cofactor. The domain is
presumed to bind molybdopterin. The structure of this
domain is known, and it forms an alpha/beta structure.
In the known structure of Gephyrin this domain mediates
trimerisation.
Length = 138
Score = 26.8 bits (60), Expect = 9.0
Identities = 23/86 (26%), Positives = 30/86 (34%), Gaps = 12/86 (13%)
Query: 40 EEQLGKALEGSDVVIIPAGVPRKPGMTRDDLFNINAGIVKSLCTAIANYCPHALVNMISN 99
E L +AL +DVVI G G DDL ++L V M
Sbjct: 50 REALREALAEADVVITTGGT----GPGPDDL------TPEALAELGGRELLGHGVAMR-- 97
Query: 100 PVNSTVPIAAEVFKKAGTYDEKKLFG 125
P P+A G +K +FG
Sbjct: 98 PGGPPGPLANLSGTAPGVRGKKPVFG 123
>gnl|CDD|109900 pfam00862, Sucrose_synth, Sucrose synthase. Sucrose synthases
catalyze the synthesis of sucrose from UDP-glucose and
fructose. This family includes the bulk of the sucrose
synthase protein. However the carboxyl terminal region
of the sucrose synthases belongs to the glycosyl
transferase family pfam00534.
Length = 550
Score = 27.6 bits (61), Expect = 9.5
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 237 QSSVTELPFFASKVRLGKNGADEVLGLGPLSDYEKQGLESLKPELKASIEKGIQFANR 294
+ SV E F ++ G + + VL L D+E +P L SI G+QF NR
Sbjct: 105 ELSVPEYLQFKEELVDGSSNDNFVLEL----DFEPFNASFPRPTLSKSIGNGVQFLNR 158
>gnl|CDD|216283 pfam01073, 3Beta_HSD, 3-beta hydroxysteroid
dehydrogenase/isomerase family. The enzyme 3
beta-hydroxysteroid dehydrogenase/5-ene-4-ene isomerase
(3 beta-HSD) catalyzes the oxidation and isomerisation
of 5-ene-3 beta-hydroxypregnene and
5-ene-hydroxyandrostene steroid precursors into the
corresponding 4-ene-ketosteroids necessary for the
formation of all classes of steroid hormones.
Length = 280
Score = 27.3 bits (61), Expect = 9.8
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 12 LYDIANTPGVAADVSHINSPAQVEG-YAGEEQLGKALEGSDVVIIPAGVPRKPGM-TRDD 69
++D+ +P + D S + +EG ++ L +AL+GSDVVI A + G RD
Sbjct: 28 VFDLRFSPELLEDFSKLQVITYIEGDVTDKQDLRRALQGSDVVIHTAAIIDVFGKAYRDT 87
Query: 70 LFNIN 74
+ +N
Sbjct: 88 IMKVN 92
>gnl|CDD|234351 TIGR03773, anch_rpt_wall, putative ABC transporter-associated
repeat protein. Members of this protein family occur in
genomes that contain a three-gene ABC transporter operon
associated with the presence of domain TIGR03769. That
domain occurs as a single-copy insert in the
substrate-binding protein, and occurs in two or more
copies in members of this protein family. Members of
this family typically are encoded adjacent to the said
transporter operon and may serve as a substrate
receptor.
Length = 513
Score = 27.6 bits (61), Expect = 9.9
Identities = 25/112 (22%), Positives = 35/112 (31%), Gaps = 15/112 (13%)
Query: 111 VFKKAGTYDEKKLFGVTTLDVVRAKTFYAGKVNVPVAEVNVPVIGGHAGVTILPLFSQAT 170
F K GTY L V ++ T GK + V + V + S +T
Sbjct: 406 AFSKPGTY---------KLQVTQSATTTNGKKASDTTTLTFAVGDNNDPVGAVGPLSAST 456
Query: 171 PKSNNL--SDEEIKALTKRTQDGGTEVVE----AKAGKGSATLSMAYAGAVF 216
P E+ A + + A G G L+M GA F
Sbjct: 457 PTDGAPGGKGCELAAKGAEGSGKKADKGKTGLLANTGLGLMALAMLLIGAGF 508
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
0.314 0.132 0.372
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,812,761
Number of extensions: 1426638
Number of successful extensions: 1182
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1126
Number of HSP's successfully gapped: 67
Length of query: 295
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 199
Effective length of database: 6,679,618
Effective search space: 1329243982
Effective search space used: 1329243982
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.4 bits)