RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781048|ref|YP_003065461.1| malate dehydrogenase
[Candidatus Liberibacter asiaticus str. psy62]
(320 letters)
>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 = 491 bits (1267), Expect = e-139
Identities = 176/305 (57%), Positives = 244/305 (80%), Gaps = 5/305 (1%)
Query: 6 IALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTSD 65
I++IG+G +G TLA L LK+LGDVVLLDIV+G+P+GKALDI++++P+ G ++ GT+D
Sbjct: 1 ISIIGAGNVGATLAQLLALKELGDVVLLDIVEGLPQGKALDISQAAPILGSDTKVTGTND 60
Query: 66 YSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNPLDA 125
Y DIA +DV ++TAGIPRKP MSRDDLL N K +++V I+KYAPN+ VI +TNPLD
Sbjct: 61 YEDIAGSDVVVITAGIPRKPGMSRDDLLGTNAKIVKEVAENIKKYAPNAIVIVVTNPLDV 120
Query: 126 MVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMVPMLR 185
M + K SG P + V+GMAG+LDSARFRYF+A+E GVSV+ V A+VLG HGD+MVP+ R
Sbjct: 121 MTYVAYKASGFPRNRVIGMAGVLDSARFRYFIAEELGVSVKDVQAMVLGGHGDTMVPLPR 180
Query: 186 YATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAIAES 245
Y+TV GIP+++L+ T+E+ID+IV+RTR GGAEIV LL++GSAYYAPA++ + E+
Sbjct: 181 YSTVGGIPLTELI-----TKEEIDEIVERTRNGGAEIVNLLKTGSAYYAPAAAIAEMVEA 235
Query: 246 YLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQKSVKAT 305
LK+KK +LPC+A+L G+YG++ +VGVPVV+G GVEKI+EL+L+ +EK+AF KSV++
Sbjct: 236 ILKDKKRVLPCSAYLEGEYGIKDIFVGVPVVLGKNGVEKIIELDLTDEEKEAFDKSVESV 295
Query: 306 VDLCN 310
+L +
Sbjct: 296 KELID 300
>gnl|CDD|30388 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 346 bits (890), Expect = 4e-96
Identities = 131/316 (41%), Positives = 203/316 (64%), Gaps = 4/316 (1%)
Query: 4 NKIALIGSGMIGGTLAHLAVLKKLG-DVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCG 62
K+A+IG+G +G +LA L +L+ LG ++VL+DI + G ALD++ ++ G ++ G
Sbjct: 1 MKVAVIGAGNVGSSLAFLLLLQGLGSELVLIDINEEKAEGVALDLSHAAAPLGSDVKITG 60
Query: 63 TSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNP 122
DY D+ AD+ ++TAG+PRKP M+R DLL N K ++ + I KYAP++ V+ +TNP
Sbjct: 61 DGDYEDLKGADIVVITAGVPRKPGMTRLDLLEKNAKIVKDIAKAIAKYAPDAIVLVVTNP 120
Query: 123 LDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMVP 182
+D + + KFSG P + V+G +LDSARFR FLA++ GVS + V A V+G HGD+MVP
Sbjct: 121 VDILTYIAMKFSGFPKNRVIGSGTVLDSARFRTFLAEKLGVSPKDVHAYVIGEHGDTMVP 180
Query: 183 MLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAI 242
+ ATV G P+ +L+K T+E ++++++R R GAEI+ + YY PA++ +
Sbjct: 181 LWSQATVGGKPLEELLK--EDTEEDLEELIERVRNAGAEIIE-AKGAGTYYGPAAALARM 237
Query: 243 AESYLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQKSV 302
E+ L+++K +LP + +L G+YGVE Y GVP V+G GVE+I+EL LS DE++ KS
Sbjct: 238 VEAILRDEKRVLPVSVYLDGEYGVEDVYFGVPAVLGKNGVEEILELLLSDDEQEKLDKSA 297
Query: 303 KATVDLCNSCTKLVPS 318
+ +LV
Sbjct: 298 EELKKNIELVKELVLI 313
>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 = 262 bits (672), Expect = 9e-71
Identities = 114/306 (37%), Positives = 182/306 (59%), Gaps = 7/306 (2%)
Query: 6 IALIGSGMIGGTLAHLAVLKKLGD-VVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTS 64
I +IG+G +G +A + K L +VL+D+ + +G ALD++ +S G + G
Sbjct: 1 ITIIGAGNVGAAVAFALIAKGLASELVLVDVNEEKAKGDALDLSHASAFLATGTIVRGG- 59
Query: 65 DYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNPLD 124
DY+D A+AD+ ++TAG PRKP +R DL+ N + V ++KY P++ ++ ++NP+D
Sbjct: 60 DYADAADADIVVITAGAPRKPGETRLDLINRNAPILRSVITNLKKYGPDAIILVVSNPVD 119
Query: 125 AMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMVPML 184
+ + QK SGLP + V+G +LDSARFR LA++ V +SV A VLG HGDS V
Sbjct: 120 ILTYVAQKLSGLPKNRVIGSGTLLDSARFRSLLAEKLDVDPQSVHAYVLGEHGDSQVVAW 179
Query: 185 RYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAIAE 244
ATV G+P+ +L T+ ++ I + R G EI+ L G+ Y A++ I +
Sbjct: 180 STATVGGLPLEELAP---FTKLDLEAIEEEVRTSGYEIIRL--KGATNYGIATAIADIVK 234
Query: 245 SYLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQKSVKA 304
S L +++ +LP +A GQYG+E + VP V+G +GV +I+E+ L+ DE+ QKS +A
Sbjct: 235 SILLDERRVLPVSAVQEGQYGIEDVALSVPAVVGREGVVRILEIPLTEDEEAKLQKSAEA 294
Query: 305 TVDLCN 310
++ N
Sbjct: 295 LKEVLN 300
>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 = 252 bits (645), Expect = 1e-67
Identities = 107/301 (35%), Positives = 178/301 (59%), Gaps = 4/301 (1%)
Query: 4 NKIALIGSGMIGGTLAHLAVLKKLGD-VVLLDIVDGMPRGKALDIAESSPVEGFGAQLCG 62
K+ +IG+G +G + A+ V + + D +VL+DI + G+ALD+ ++ ++
Sbjct: 1 RKVVIIGAGHVGSSFAYSLVNQGIADELVLIDINEEKAEGEALDLEDALAFLPSPVKIKA 60
Query: 63 TSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNP 122
DYSD +AD+ ++TAG P+KP +R DLL N K ++ + I+ + + +NP
Sbjct: 61 G-DYSDCKDADIVVITAGAPQKPGETRLDLLEKNAKIMKSIVPKIKASGFDGIFLVASNP 119
Query: 123 LDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMVP 182
+D + + +QK SGLP + V+G LD+AR R LA++ V SV A VLG HGDS
Sbjct: 120 VDVITYVVQKLSGLPKNRVIGTGTSLDTARLRRALAEKLNVDPRSVHAYVLGEHGDSQFV 179
Query: 183 MLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAI 242
TV G P+ DL+K G ++ +D+I + R+ G EI+ G+ YY A++ I
Sbjct: 180 AWSTVTVGGKPLLDLLKEGKLSELDLDEIEEDVRKAGYEIIN--GKGATYYGIATALARI 237
Query: 243 AESYLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQKSV 302
++ L ++ +LP +A+L G+YG + Y+GVP +IG GVE+++EL+L+ +E++ F+KS
Sbjct: 238 VKAILNDENAILPVSAYLDGEYGEKDVYIGVPAIIGRNGVEEVIELDLTEEEQEKFEKSA 297
Query: 303 K 303
Sbjct: 298 D 298
>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 = 233 bits (597), Expect = 5e-62
Identities = 103/304 (33%), Positives = 175/304 (57%), Gaps = 7/304 (2%)
Query: 4 NKIALIGSGMIGGTLAHLAVLKKLGD-VVLLDIVDGMPRGKALDIAESSPVEGFGAQLCG 62
K+A++G+G +G T A+ +L+ L +VL+DI G+A+D+A +P
Sbjct: 1 MKVAIVGAGFVGSTTAYALLLRGLASEIVLVDINKAKAEGEAMDLAHGTPF--VKPVRIY 58
Query: 63 TSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNP 122
DY+D ADV ++TAG +KP +R DLL N+ +++ I KYAP++ ++ +TNP
Sbjct: 59 AGDYADCKGADVVVITAGANQKPGETRLDLLKRNVAIFKEIIPQILKYAPDAILLVVTNP 118
Query: 123 LDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMVP 182
+D + + K SGLP + V+G +LD+ARFRY L + GV SV A ++G HGDS V
Sbjct: 119 VDVLTYVAYKLSGLPPNRVIGSGTVLDTARFRYLLGEHLGVDPRSVHAYIIGEHGDSEVA 178
Query: 183 MLRYATVSGIPVSDLVKLGWT--TQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAI 240
+ A + G+P+ + KL +E ++I + R EI+ R G+ YYA +
Sbjct: 179 VWSSANIGGVPLDEFCKLCGRPFDEEVREEIFEEVRNAAYEIIE--RKGATYYAIGLALA 236
Query: 241 AIAESYLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQK 300
I E+ L+++ ++L ++ L GQYG++ + +P ++G GVE+++ LS +E++A +
Sbjct: 237 RIVEAILRDENSVLTVSSLLDGQYGIKDVALSLPCIVGRSGVERVLPPPLSEEEEEALRA 296
Query: 301 SVKA 304
S +
Sbjct: 297 SAEV 300
>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 = 195 bits (497), Expect = 1e-50
Identities = 99/311 (31%), Positives = 172/311 (55%), Gaps = 10/311 (3%)
Query: 5 KIALIG-SGMIGGTLA-HLAVLKKLGDVVLLDIVDGMPR--GKALDIAESSPVEGFGAQL 60
K+++IG SG +G A LA + ++ L+ + + G LDI ++ G A++
Sbjct: 2 KVSIIGASGRVGSATALLLAKEDVVKEINLISRPKSLEKLKGLRLDIYDALAAAGIDAEI 61
Query: 61 CGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICIT 120
+SD SD+A +D+ I+TAG+PRK MSR DL N K ++K I ++AP++ ++ +T
Sbjct: 62 KISSDLSDVAGSDIVIITAGVPRKEGMSRLDLAKKNAKIVKKYAKQIAEFAPDTKILVVT 121
Query: 121 NPLDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSM 180
NP+D M + K SG + V G+ LDS RF+ +A+ F V + V ++G HGDSM
Sbjct: 122 NPVDVMTYKALKESGFDKNRVFGLGTHLDSLRFKVAIAKHFNVHISEVHTRIIGEHGDSM 181
Query: 181 VPMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAI 240
VP++ ++ GIP+ + +++IV+ + G I+ L G + Y PAS+
Sbjct: 182 VPLISSTSIGGIPIKRFPEY---KDFDVEKIVETVKNAGQNIISL--KGGSEYGPASAIS 236
Query: 241 AIAESYLKNKKNLLPCAAHLSGQY-GVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQ 299
+ + +++ +L + +L G+ G+ +GVPV +G G+E+IV + + DE++AF+
Sbjct: 237 NLVRTIANDERRILTVSTYLEGEIDGIRDVCIGVPVKLGKNGIEEIVPIEMDDDEREAFR 296
Query: 300 KSVKATVDLCN 310
KS +
Sbjct: 297 KSAEIVKKYTR 307
>gnl|CDD|36708 KOG1495, KOG1495, KOG1495, Lactate dehydrogenase [Energy production
and conversion].
Length = 332
Score = 188 bits (480), Expect = 1e-48
Identities = 90/314 (28%), Positives = 160/314 (50%), Gaps = 7/314 (2%)
Query: 2 KSNKIALIGSGMIGGTLAHLAVLKKLGD-VVLLDIVDGMPRGKALDIAESSPVEGFGAQL 60
K NKI ++G G +G A +LK L D +VL+D+ + +G+ +D+ S +
Sbjct: 19 KHNKITVVGVGQVGMACAISILLKGLADELVLVDVNEDKLKGEMMDLQHGSAFLSTPNVV 78
Query: 61 CGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICIT 120
DYS A + + I+TAG + SR DL+ N+ + + + KY+P+ ++ ++
Sbjct: 79 ASK-DYSVSANSKLVIITAGARQSEGESRLDLVQRNVDIFKAIIPALVKYSPDCILLVVS 137
Query: 121 NPLDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSM 180
NP+D + + K SG P + V+G LDSARFRY + GV S ++G HGDS
Sbjct: 138 NPVDILTYVTWKLSGFPKNRVIGSGCNLDSARFRYLIGNRLGVHPSSCHGWIIGEHGDSS 197
Query: 181 VPMLRYATVSGIPVSDLVKLGWTT--QEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASS 238
VP+ ++G+ + DL T E +I K+ + E++ L G +A S
Sbjct: 198 VPVWSGVNIAGVSLKDLNPDLGTDYDPENWKEIHKQVVDSAYEVIKL--KGYTSWAIGLS 255
Query: 239 AIAIAESYLKNKKNLLPCAAHLSGQYGVEG-FYVGVPVVIGHKGVEKIVELNLSFDEKDA 297
+A++ L+N + + P + + G YG++ ++ +P ++G G+ +V+ L+ +E
Sbjct: 256 VADLAQAILRNLRRIHPVSTMVKGLYGIDDDVFLSLPCLLGANGITHVVKQKLTDEEVAK 315
Query: 298 FQKSVKATVDLCNS 311
+KS K ++ S
Sbjct: 316 LKKSAKTLLEAQKS 329
>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 = 181 bits (461), Expect = 3e-46
Identities = 93/305 (30%), Positives = 159/305 (52%), Gaps = 9/305 (2%)
Query: 5 KIALIGSGMIG-GTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGT 63
K+ +IG+G +G L + L ++VL+D+ +G+ G+ALD ++ +
Sbjct: 1 KLVVIGAGHVGSAVLNYALALGLFSEIVLIDVNEGVAEGEALDFHHATALTYSTNTKIRA 60
Query: 64 SDYSDIAEADVCIVTAGIPRKPS--MSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITN 121
DY D A+AD+ ++TAG P R DL N K I ++ I K + +I ITN
Sbjct: 61 GDYDDCADADIIVITAGPSIDPGNTDDRLDLAQTNAKIIREIMGNITKVTKEAVIILITN 120
Query: 122 PLDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMV 181
PLD V+ P++ V+G +LD+AR R +A ++GV ++VT VLG HG
Sbjct: 121 PLDIAVYIAATEFDYPANKVIGTGTMLDTARLRRIVADKYGVDPKNVTGYVLGEHGSHAF 180
Query: 182 PMLRYATVSGIPVSDLVKLGWTTQEKID--QIVKRTREGGAEIVGLLRSGSAYYAPASSA 239
P+ ++G+P+ +L +E ID ++++ + ++ R G A SA
Sbjct: 181 PVWSLVNIAGLPLDELEA--LFGKEPIDKDELLEEVVQAAYDV--FNRKGWTNAGIAKSA 236
Query: 240 IAIAESYLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQ 299
+ ++ L +++++LP LSG+YG+ + +P VIG KG+E+++E+ L E +
Sbjct: 237 SRLIKAILLDERSILPVCTLLSGEYGLSDVALSLPTVIGAKGIERVLEIPLDEWELEKLH 296
Query: 300 KSVKA 304
KS KA
Sbjct: 297 KSAKA 301
>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 = 175 bits (445), Expect = 2e-44
Identities = 94/310 (30%), Positives = 166/310 (53%), Gaps = 7/310 (2%)
Query: 3 SNKIALIGSGMIGGTLAHLAVLKKLGD-VVLLDIVDGMPRGKALDIAESSPVEGFGAQLC 61
NK+ ++G G +G A + K L D +VL+D+V+ +G+A+D+ S ++
Sbjct: 3 RNKVTVVGVGQVGMACAISILAKGLADELVLVDVVEDKLKGEAMDLQHGSAFLK-NPKIE 61
Query: 62 GTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITN 121
DYS A + V IVTAG + SR DL+ N+ + + + KY+PN+ ++ ++N
Sbjct: 62 ADKDYSVTANSKVVIVTAGARQNEGESRLDLVQRNVDIFKGIIPKLVKYSPNAILLVVSN 121
Query: 122 PLDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMV 181
P+D M + K SGLP H V+G LDSARFRY +A+ GV+ SV ++G HGDS V
Sbjct: 122 PVDIMTYVAWKLSGLPKHRVIGSGCNLDSARFRYLIAERLGVAPSSVHGWIIGEHGDSSV 181
Query: 182 PMLRYATVSGIPVSDLVKLGWTTQ--EKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSA 239
P+ V+G+ + DL T + EK ++ K+ + E++ L G +A S
Sbjct: 182 PVWSGVNVAGVRLQDLNPDIGTDKDPEKWKEVHKQVVDSAYEVIKL--KGYTSWAIGLSV 239
Query: 240 IAIAESYLKNKKNLLPCAAHLSGQYGVEG-FYVGVPVVIGHKGVEKIVELNLSFDEKDAF 298
+ ++ L+N + + + G +G+E ++ +P ++G G+ +++ L+ +E++
Sbjct: 240 ADLVDAILRNTGRVHSVSTLVKGLHGIEDEVFLSLPCILGENGITHVIKQPLTEEEQEKL 299
Query: 299 QKSVKATVDL 308
QKS ++
Sbjct: 300 QKSADTLWEV 309
>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 = 160 bits (408), Expect = 4e-40
Identities = 87/304 (28%), Positives = 139/304 (45%), Gaps = 54/304 (17%)
Query: 6 IALIG-SGMIGGTLAHLAVLKKLGD----VVLLDIVDGMPRGKALDIAESSPVEGFGAQL 60
IA+IG G +G LA + +VL DI + +G A+D+ ++
Sbjct: 1 IAVIGAGGNVGPALAF-GLADGSVLLAIELVLYDIDEEKLKGVAMDLQDAVEPLADIKVS 59
Query: 61 CGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICIT 120
Y +ADV I+TAG+ RKP M R DLL N+ ++++G I KY+P++++I ++
Sbjct: 60 ITDDPYEAFKDADVVIITAGVGRKPGMGRLDLLKRNVPIVKEIGDNIEKYSPDAWIIVVS 119
Query: 121 NPLDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSM 180
NP+D + + + ++SGLP V+G+ G LD RFR LA++ GV + V +LG HG S
Sbjct: 120 NPVDIITYLVWRYSGLPKEKVIGL-GTLDPIRFRRILAEKLGVDPDDVKVYILGEHGGSQ 178
Query: 181 VPMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAI 240
VP A+S
Sbjct: 179 VPDWSTVR----------------------------------------------IATSIA 192
Query: 241 AIAESYLKNKKNLLPCAAHLSGQYGV-EGFYVGVPVVIGHKGVEKIVELNLSFDEKDAFQ 299
+ S L ++ +LP +GQ G+ + V VP ++G GVE+ +E+ L+ E + Q
Sbjct: 193 DLIRSLLNDEGEILPVGVRNNGQIGIPDDVVVSVPCIVGKNGVEEPIEVGLTDFELEKLQ 252
Query: 300 KSVK 303
KS
Sbjct: 253 KSAD 256
>gnl|CDD|111722 pfam02866, Ldh_1_C, lactate/malate dehydrogenase, alpha/beta
C-terminal domain. L-lactate dehydrogenases are
metabolic enzymes which catalyse 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
catalyse 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 = 128 bits (324), Expect = 2e-30
Identities = 57/160 (35%), Positives = 90/160 (56%), Gaps = 4/160 (2%)
Query: 147 ILDSARFRYFLAQEFGVSVESVTALVLGSHGDSMVPMLRYATVSGIPVSDLVKL-GWTTQ 205
LD+AR R FLA++FGV SV V+G H + P +A V+ IP+ VK T
Sbjct: 2 TLDTARARTFLAEKFGVDPRSVNVYVIGEHSGTQFPDWSHAKVTIIPLLSQVKENLKDTD 61
Query: 206 EKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAIAESYLKNKKNLLPCAAHLSGQYG 265
+++++++R + G E++ ++GS Y+ A +A IA++ L+ +L +L G YG
Sbjct: 62 WELEELIERVQNAGYEVIE-AKAGSTTYSMAYAAARIAKAILRGTGGVLSVGVYLDGYYG 120
Query: 266 VEGF-YVGVPVVIGHKGVEKIVE-LNLSFDEKDAFQKSVK 303
Y VPVV+G GVEK+VE L L+ E++ +KS
Sbjct: 121 SPDDIYFSVPVVLGKDGVEKVVEILPLNDFEREKLEKSAA 160
>gnl|CDD|143841 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyse 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 catalyse 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 = 109 bits (275), Expect = 1e-24
Identities = 52/145 (35%), Positives = 80/145 (55%), Gaps = 9/145 (6%)
Query: 4 NKIALIG-SGMIGGTLAHLAVLKKLG-DVVLLDIVDGMPRGKALD---IAESSPVEGFGA 58
K+A++G G +G +LA L+ L ++VL+DI G A+D + V G
Sbjct: 1 VKVAVVGAGGGVGSSLAFALALQGLADELVLVDINKDKAEGVAMDLSHGSTFLSVPGIV- 59
Query: 59 QLCGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVIC 118
G DY + +ADV ++TAG+PRKP M+R DLL N + + I K AP++ V+
Sbjct: 60 ---GGDDYEALKDADVVVITAGVPRKPGMTRLDLLNRNAGIFKDIVPAIAKSAPDAIVLV 116
Query: 119 ITNPLDAMVWALQKFSGLPSHMVVG 143
++NP+D + + K SGLP V+G
Sbjct: 117 VSNPVDILTYIAWKVSGLPPERVIG 141
>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 = 107 bits (269), Expect = 5e-24
Identities = 91/322 (28%), Positives = 149/322 (46%), Gaps = 49/322 (15%)
Query: 5 KIALIG-SGMIGGTLAHLAVLKKL-GDVVLLDIVDGMPRGKALD---IAESSPVEGFGAQ 59
K+A++G +G IG L+ L L L ++ L DIV+ G A D I + V G+
Sbjct: 2 KVAVLGAAGGIGQPLSLLLKLNPLVSELALYDIVN--TPGVAADLSHINTPAKVTGYLGP 59
Query: 60 LCGTSDYSDIAEA----DVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSF 115
++ +A DV ++ AG+PRKP M+RDDL N + + + K P +
Sbjct: 60 -------EELKKALKGADVVVIPAGVPRKPGMTRDDLFNINAGIVRDLATAVAKACPKAL 112
Query: 116 VICITNPLDAMV----WALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTAL 171
++ I+NP+++ V L+K + G+ LD R F+A+ G+ V
Sbjct: 113 ILIISNPVNSTVPIAAEVLKKAGVYDPKRLFGVT-TLDVVRANTFVAELLGLDPAKVNVP 171
Query: 172 VLGSH-GDSMVPMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIV----GLL 226
V+G H G +++P+L + P + QE+I+ + R + GG E+V G
Sbjct: 172 VIGGHSGVTILPLL---SQCQPPFT-------FDQEEIEALTHRIQFGGDEVVKAKAG-- 219
Query: 227 RSGSAY----YAPASSAIAIAESYLKNKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGV 282
+GSA YA A A ++ LK +K ++ CA S + PV +G GV
Sbjct: 220 -AGSATLSMAYAGARFANSLLRG-LKGEKGVIECAYVESDVTEAP--FFATPVELGKNGV 275
Query: 283 EKIVEL-NLSFDEKDAFQKSVK 303
EK + L L+ EK + ++
Sbjct: 276 EKNLGLGKLNDYEKKLLEAALP 297
>gnl|CDD|36707 KOG1494, KOG1494, KOG1494, NAD-dependent malate dehydrogenase
[Energy production and conversion].
Length = 345
Score = 103 bits (258), Expect = 7e-23
Identities = 91/316 (28%), Positives = 151/316 (47%), Gaps = 36/316 (11%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVV----LLDIVDGMPRGKALD---IAESSPVEGFG 57
K+A++G+ GG L++L KL +V L DI P G A D I +S V GF
Sbjct: 30 KVAVLGAA--GGIGQPLSLLLKLNPLVSELALYDIA-NTP-GVAADLSHINTNSSVVGFT 85
Query: 58 AQLCGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVI 117
+ + ADV ++ AG+PRKP M+RDDL N ++ + A I K PN+ ++
Sbjct: 86 GA---DGLENALKGADVVVIPAGVPRKPGMTRDDLFNINAGIVKTLAAAIAKCCPNALIL 142
Query: 118 CITNPLDAMV-WALQKFSGLPSHMVVGMAGI--LDSARFRYFLAQEFGVSV-ESVTALVL 173
I+NP+++ V A + + + G+ LD R F+A+ + E V V+
Sbjct: 143 VISNPVNSTVPIAAEVLKKAGVYDPKKLFGVTTLDVVRANTFVAEVLNLDPAEDVDVPVI 202
Query: 174 GSH-GDSMVPMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLR-SGSA 231
G H G +++P+L P T ++I+ + R + GG E+V +GSA
Sbjct: 203 GGHAGITIIPLLSQCK----PPFRF------TDDEIEALTHRIQNGGTEVVKAKAGAGSA 252
Query: 232 YYAPASSAIAIAESYLK---NKKNLLPCAAHLSGQYGVEGFYVGVPVVIGHKGVEKIVEL 288
+ A + A+S L+ ++++ CA S + + PV +G KGVE+++ L
Sbjct: 253 TLSMAYAGAKFADSLLRGLNGDEDVVECAFVASPVTELP--FFATPVTLGKKGVEEVLGL 310
Query: 289 N-LSFDEKDAFQKSVK 303
LS E+ A + +
Sbjct: 311 GKLSDYEEKALEAAKP 326
>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 = 93.5 bits (233), Expect = 6e-20
Identities = 90/326 (27%), Positives = 135/326 (41%), Gaps = 54/326 (16%)
Query: 11 SGMIGGTLAHL----AVLKKLGDVV--LLDIVDGMPRGKAL-----DIAESSPVEGFGAQ 59
+G IG L L + V+ LLDI M + + D A P+
Sbjct: 9 AGQIGYNLLFLIASGELFGDDQPVILHLLDIPPAMKALEGVVMELQDCA--FPL------ 60
Query: 60 LCGTSDYSDIAEA----DVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYA-PNS 114
L G +D EA DV I+ PRKP M R DLL N K ++ G + K A P
Sbjct: 61 LKGVVITTDPEEAFKDVDVAILVGAFPRKPGMERADLLRKNAKIFKEQGEALNKVAKPTV 120
Query: 115 FVICITNP--LDAMVWALQKFS-GLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVT-A 170
V+ + NP +A++ K + LP + LD R + +A++ GV V V
Sbjct: 121 KVLVVGNPANTNALI--ALKNAPNLPPKNFTALT-RLDHNRAKAQVARKLGVRVSDVKNV 177
Query: 171 LVLGSHGDSMVPMLRYATV----SGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLL 226
++ G+H ++ VP L A V V DL+ W E + + KR GA I+
Sbjct: 178 IIWGNHSNTQVPDLSNAVVYGPGGTEWVLDLLDEEWLNDEFVKTVQKR----GAAIIKKR 233
Query: 227 RSGSAYYAPASSAIAIAES-----YLKNKKNLLPCAAHLSGQ-YGV-EGFYVGVPVVIGH 279
+ SA AS+A AIA+ + ++ + G YG+ G P
Sbjct: 234 GASSA----ASAAKAIADHVKDWLFGTPPGEIVSMGVYSPGNPYGIPPGIVFSFPCTC-K 288
Query: 280 KGVEKIVELNLSFDEKDAFQKSVKAT 305
G +VE +L + D ++ +KAT
Sbjct: 289 GGGWHVVE-DLKLN--DWLREKLKAT 311
>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 = 80.4 bits (199), Expect = 6e-16
Identities = 75/247 (30%), Positives = 111/247 (44%), Gaps = 31/247 (12%)
Query: 67 SDIAEA----DVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYA-PNSFVICITN 121
+D EA DV I+ +PRK M R DLL N+K ++ G + KYA N V+ + N
Sbjct: 70 TDPEEAFKDVDVAILVGAMPRKEGMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGN 129
Query: 122 PLDAMVWALQKF-SGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVL-GSHGDS 179
P + L K+ +P + LD R + +A + GV V V +++ G+H +
Sbjct: 130 PANTNALILLKYAPSIPKENFTALTR-LDHNRAKSQIALKLGVPVSDVKNVIIWGNHSST 188
Query: 180 MVPMLRYATV----SGIPVSDLVK-LGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYA 234
P + +ATV G P + VK W E I + KR GA ++ + SA
Sbjct: 189 QYPDVNHATVELNGKGKPAREAVKDDAWLNGEFISTVQKR----GAAVIKARKLSSA--- 241
Query: 235 PASSAIAIAESYLKNKKNLLPCAAHLS------GQYGV-EGFYVGVPVVIGHKGVEKIVE 287
S+A AI + ++ + P +S G YGV EG PV G KIV+
Sbjct: 242 -MSAAKAICD-HVHDWWFGTPEGEFVSMGVYSDGSYGVPEGLIFSFPVTC-KNGKWKIVQ 298
Query: 288 LNLSFDE 294
LS D+
Sbjct: 299 -GLSIDD 304
>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 = 78.4 bits (194), Expect = 2e-15
Identities = 75/254 (29%), Positives = 103/254 (40%), Gaps = 39/254 (15%)
Query: 72 ADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNS---FVI---CITNPLDA 125
AD ++ PR P M R DLL N K G + A V+ C TN L A
Sbjct: 79 ADWALLVGAKPRGPGMERADLLKANGKIFTAQGKALNDVASRDVKVLVVGNPCNTNALIA 138
Query: 126 MVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVL-GSHGDSMVPML 184
M A +P M LD R + LA++ GV V V +V+ G+H + P
Sbjct: 139 MKNA----PDIPPDNFTAMTR-LDHNRAKSQLAKKAGVPVTDVKNMVIWGNHSPTQYPDF 193
Query: 185 RYATVSGIPVSD-LVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAIA 243
AT+ G P ++ + W E I + KR GA I+ + SA AS+A A
Sbjct: 194 TNATIGGKPAAEVINDRAWLEDEFIPTVQKR----GAAIIKARGASSA----ASAANAAI 245
Query: 244 ESYLKNKKNLLP-------CAAHLS-GQYGV-EGFYVGVPVVIGHKGVEKIVELNLSFDE 294
+ + +L A S G YG+ EG PV G E IVE L D+
Sbjct: 246 DHM---RDWVLGTPEGDWFSMAVPSDGSYGIPEGLIFSFPVRSKGGGYE-IVE-GLEIDD 300
Query: 295 KDAFQKS-VKATVD 307
F + + AT+
Sbjct: 301 ---FAREKIDATLA 311
>gnl|CDD|36709 KOG1496, KOG1496, KOG1496, Malate dehydrogenase [Energy production
and conversion].
Length = 332
Score = 67.8 bits (165), Expect = 3e-12
Identities = 75/255 (29%), Positives = 114/255 (44%), Gaps = 20/255 (7%)
Query: 73 DVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYA-PNSFVICITNPLDAMVWALQ 131
DV I+ +PR+ M R DLL+ N+K + GA + KYA PN V+ + NP + L+
Sbjct: 82 DVAILVGAMPRREGMERKDLLSANVKIFKSQGAALEKYAKPNVKVLVVGNPANTNALILK 141
Query: 132 KFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVL-GSHGDSMVPMLRYATVS 190
KF+ LD R LA + GV V V +++ G+H + P + +ATV+
Sbjct: 142 KFAPSIPEKNFSALTRLDHNRALAQLALKLGVPVSDVKNVIIWGNHSSTQYPDVNHATVN 201
Query: 191 G----IPVSDLVK-LGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSAIAIAES 245
PV + VK W E I+ + KR GA ++ + SA A ++ I +
Sbjct: 202 TNGGEKPVKEAVKDDAWLQGEFIETVQKR----GAAVIKARKLSSAMSAAKAACDHIRDW 257
Query: 246 YLKNKK-NLLPCAAHLSGQYGV-EGFYVGVPVVIGHKGVEKIVELNLSFDE-----KDAF 298
+ + + + G YG+ +G PV I G KIV+ L D+ D
Sbjct: 258 WFGTPEGTFVSMGVYSDGSYGIPDGLIFSFPVTI-KNGDWKIVQ-GLPIDDFSREKMDLT 315
Query: 299 QKSVKATVDLCNSCT 313
K +K DL SC
Sbjct: 316 AKELKEEKDLAYSCL 330
>gnl|CDD|146385 pfam03721, UDPG_MGDP_dh_N, UDP-glucose/GDP-mannose dehydrogenase
family, NAD binding domain. The UDP-glucose/GDP-mannose
dehydrogenaseses are a small group of enzymes which
possesses the ability to catalyse the NAD-dependent
2-fold oxidation of an alcohol to an acid without the
release of an aldehyde intermediate.
Length = 185
Score = 39.5 bits (93), Expect = 0.001
Identities = 39/157 (24%), Positives = 59/157 (37%), Gaps = 37/157 (23%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLG-DVVLLDI----VDGMPRGKALDIAESSPV------ 53
+IA+IG G +G A L ++G DVV +DI +D + GK P+
Sbjct: 2 RIAVIGLGYVGLPTA--VCLAEIGHDVVGVDINQSKIDKLNNGK-------IPIYEPGLE 52
Query: 54 ----EGFGAQLCGTSDYSD-IAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIR 108
+L T+D ++ I EADV + P S+ D L +E I
Sbjct: 53 ELLKANVSGRLRFTTDVAEAIKEADVIFIAVPTP-----SKKGGAPD-LTYVESAARTIG 106
Query: 109 KYAPNSFVICI--TNPLDAM----VWALQKFSGLPSH 139
V+ + T P L+K SG +
Sbjct: 107 PVLKKGKVVVVKSTVPPGTTEEVVKPILEKRSGKKAV 143
>gnl|CDD|31442 COG1250, FadB, 3-hydroxyacyl-CoA dehydrogenase [Lipid
metabolism].
Length = 307
Score = 39.1 bits (91), Expect = 0.002
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 15/89 (16%)
Query: 1 MKSNKIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESS--------- 51
M+ K+A+IG+G++G +A + L DVVL DI +AL E +
Sbjct: 1 MEIKKVAVIGAGVMGAGIAAVFALAGY-DVVLKDISPEALE-RALAYIEKNLEKLVEKGK 58
Query: 52 ----PVEGFGAQLCGTSDYSDIAEADVCI 76
+ A++ T+D + + +AD+ I
Sbjct: 59 LTEEEADAALARITPTTDLAALKDADLVI 87
>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 = 38.3 bits (90), Expect = 0.003
Identities = 46/205 (22%), Positives = 77/205 (37%), Gaps = 47/205 (22%)
Query: 5 KIALIGSGMIGGT---LAHLAVLKKL--GDVVLLDIVDGMPRGKALDIAESSPVEGFGAQ 59
KIA IG+G + T + L +L + L+DI D R + ++I VE GA
Sbjct: 2 KIAFIGAGSVVFTKNLVGDLLKTPELSGSTIALMDI-DE-ERLETVEILAKKIVEELGAP 59
Query: 60 LCGTSDYSDIAEA----DVCIVTAGIPRKPSMSRD-DL---------LADNL-------- 97
L + +D EA D I T + D ++ + D
Sbjct: 60 LKIEA-TTDRREALDGADFVINTIQVGGHEYTETDFEIPEKYGYYQTVGDTSGPGGIFRA 118
Query: 98 ----KAIEKVGAGIRKYAPNSFVICITNPLDAMVWALQKFSGLPS----HMVVGMAGILD 149
+ + I + P+++++ NP+ + WAL +++ + + H V G A
Sbjct: 119 LRTIPVLLDIARDIEELCPDAWLLNYANPMAELTWALNRYTPIKTVGLCHGVQGTAEQ-- 176
Query: 150 SARFRYFLAQEFGVSVESVTALVLG 174
LA+ G E V V G
Sbjct: 177 -------LAKLLGEPPEEVDYQVAG 194
>gnl|CDD|31675 COG1486, CelF, Alpha-galactosidases/6-phospho-beta-glucosidases,
family 4 of glycosyl hydrolases [Carbohydrate transport
and metabolism].
Length = 442
Score = 35.2 bits (81), Expect = 0.024
Identities = 40/179 (22%), Positives = 66/179 (36%), Gaps = 37/179 (20%)
Query: 1 MKSNKIALIGSGMIGGTLAHLAVLKK-----LGDVVLLDIVDGMPRGKALDIAESSPVE- 54
MK KI +IG G L L + + ++ L DI + R K + I VE
Sbjct: 1 MKKFKIVIIGGGSTYTPKLLLGDLARTEELPVRELALYDIDEE--RLKIIAILAKKLVEE 58
Query: 55 -GFGAQLCGTSDYSD-IAEADVCIVTA------------GIPRKPSMSRDDLLA------ 94
G ++ T+D + + AD I IP K + +
Sbjct: 59 AGAPVKVEATTDRREALEGADFVITQIRVGGLEAREKDERIPLKHGLYGQETNGPGGIFY 118
Query: 95 --DNLKAIEKVGAGIRKYAPNSFVICITNPLDAMVWALQ------KFSGLPSHMVVGMA 145
+ I + + K PN++++ TNP + A++ K GL H +G+A
Sbjct: 119 GLRTIPVILDIAKDMEKVCPNAWMLNYTNPAAIVTEAVRRLYPKIKIVGL-CHGPIGIA 176
>gnl|CDD|31021 COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell
envelope biogenesis, outer membrane].
Length = 436
Score = 35.2 bits (81), Expect = 0.027
Identities = 30/116 (25%), Positives = 48/116 (41%), Gaps = 11/116 (9%)
Query: 2 KSNKIALIGSGMIGGTLAHLAVLKKLGDVVLLDI----VDGMPRGKA--LDIAESSPVEG 55
S I +IG G +G LA A V+ +DI VD + RG++ + V+
Sbjct: 8 MSATIGVIGLGYVGLPLA-AAFASAGFKVIGVDINQKKVDKLNRGESYIEEPDLDEVVKE 66
Query: 56 F--GAQLCGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRK 109
+L T+D ++ E DV I+ P K D L+ A + ++K
Sbjct: 67 AVESGKLRATTDPEELKECDVFIICVPTPLKKYREPD--LSYVESAARSIAPVLKK 120
>gnl|CDD|30635 COG0287, TyrA, Prephenate dehydrogenase [Amino acid transport and
metabolism].
Length = 279
Score = 32.6 bits (74), Expect = 0.15
Identities = 30/131 (22%), Positives = 50/131 (38%), Gaps = 15/131 (11%)
Query: 1 MKSNKIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQL 60
S K+ ++G G++GG+LA LK+ G VV + D +++ G +L
Sbjct: 1 GASMKVGIVGLGLMGGSLAR--ALKEAGLVVRIIGRDRSA-----ATLKAALELGVIDEL 53
Query: 61 CGTSDYSDIAEADVCIVTAGIP--------RKPSMSRDDLLADNLKAIEKVGAGIRKYAP 112
AEAD+ IV I P + + ++ D V + KY P
Sbjct: 54 TVAGLAEAAAEADLVIVAVPIEATEEVLKELAPHLKKGAIVTDVGSVKSSVVEAMEKYLP 113
Query: 113 NSFVICITNPL 123
+P+
Sbjct: 114 GDVRFVGGHPM 124
>gnl|CDD|36762 KOG1549, KOG1549, KOG1549, Cysteine desulfurase NFS1 [Amino acid
transport and metabolism].
Length = 428
Score = 32.2 bits (73), Expect = 0.20
Identities = 30/156 (19%), Positives = 57/156 (36%), Gaps = 16/156 (10%)
Query: 155 YFLAQEFGVSVESVTALVLGSHGDSMVPMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKR 214
+ ++ S T LV H ++ PV ++VK+ +E + V
Sbjct: 168 LVDISKLREAIRSKTRLVSIMHVNNE-------IGVLQPVKEIVKI--CREEGVQVHVDA 218
Query: 215 TREGGAEIVGLLRSGSAYYAPASSAI----AIAESYLKNKKNLLPCAAHLSGQYGVEGFY 270
+ G V + + + + ++ I I Y++ K+ L LSG G
Sbjct: 219 AQAVGKIPVDVQELNADFLSISAHKIYGPPGIGALYVRRKRPRLRVEPPLSGGGQERGLR 278
Query: 271 VGV---PVVIGHKGVEKIVELNLSFDEKDAFQKSVK 303
G P+ +G + V +++DE + S K
Sbjct: 279 SGTVATPLAVGLGSAAEFVNKEMAYDEAIIKRLSEK 314
>gnl|CDD|111613 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 31.7 bits (73), Expect = 0.24
Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 13/84 (15%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVVLLD------------IVDGMPRGKALDIAESSP 52
K+A+IG+G +G +A + L +VVL+D I + R
Sbjct: 1 KVAVIGAGTMGAGIAQVFARAGL-EVVLVDISEEALEKARARIEKSLARLVEKGRLTEED 59
Query: 53 VEGFGAQLCGTSDYSDIAEADVCI 76
V+ A++ T+D +D +AD+ I
Sbjct: 60 VDAVLARISFTTDLADAVDADLVI 83
>gnl|CDD|31017 COG0673, MviM, Predicted dehydrogenases and related proteins
[General function prediction only].
Length = 342
Score = 31.0 bits (69), Expect = 0.42
Identities = 22/82 (26%), Positives = 32/82 (39%), Gaps = 11/82 (13%)
Query: 1 MKSNKIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQL 60
MK ++ +IG+G I G AHL L LG + L V +A AE +
Sbjct: 1 MKMIRVGIIGAGGIAGK-AHLPALAALGGGLELVAVVDRDPERAEAFAEEFGIAKA---- 55
Query: 61 CGTSDYSDIAEAD----VCIVT 78
+D ++ V I T
Sbjct: 56 --YTDLEELLADPDIDAVYIAT 75
>gnl|CDD|145302 pfam02056, Glyco_hydro_4, Family 4 glycosyl hydrolase.
Length = 183
Score = 30.0 bits (68), Expect = 0.82
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 7/48 (14%)
Query: 107 IRKYAPNSFVICITNPLDAMVWALQ------KFSGLPSHMVVGMAGIL 148
I + P+++V+ TNP + A+ K GL H +G+ L
Sbjct: 131 IEELCPDAWVLNYTNPAAMVTEAVYRRYPNIKAVGL-CHSPIGIEERL 177
>gnl|CDD|146445 pfam03807, F420_oxidored, NADP oxidoreductase coenzyme
F420-dependent.
Length = 93
Score = 29.5 bits (67), Expect = 1.1
Identities = 27/120 (22%), Positives = 40/120 (33%), Gaps = 29/120 (24%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRG--KALDIAESSPVEGFGAQLCG 62
KI +IG+G +G LA +++ R KA +AE G
Sbjct: 1 KIGIIGAGNMGEALARGLAAAG------HEVIIANSRNPEKAAALAEE-----LGVGATA 49
Query: 63 TSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNP 122
S+ EADV I+ + + +V A + VI ITN
Sbjct: 50 VSNEEAAEEADVVILA--VKP--------------EDAPEVLAELADLLKGKLVISITNG 93
>gnl|CDD|35037 COG5478, COG5478, Predicted small integral membrane protein
[Function unknown].
Length = 141
Score = 29.1 bits (65), Expect = 1.5
Identities = 22/105 (20%), Positives = 38/105 (36%), Gaps = 11/105 (10%)
Query: 121 NPLDAMVWALQKFSGLPSHMVVGMAGILDSARFRYFLAQEFGVSVESVTALVLGSHGDSM 180
N D + F G P VV + IL A FG S + ++
Sbjct: 4 NWFDRFANRVADFLGRPPAFVVALVAILVWAGSGPL----FGFSDTWQLVINTSV---AI 56
Query: 181 VPMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGL 225
+ L + D + Q K+D++++ RE ++VG+
Sbjct: 57 ITFLMVVLIQNTQNRDTAAI----QAKLDELIRSLREARNDVVGI 97
>gnl|CDD|144849 pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding
Rossmann fold. This family of enzymes utilize NADP or
NAD. This family is called the GFO/IDH/MOCA family in
swiss-prot.
Length = 120
Score = 29.1 bits (66), Expect = 1.7
Identities = 23/107 (21%), Positives = 42/107 (39%), Gaps = 24/107 (22%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTS 64
++ ++G+G I G A+ + L+ ++D P +A +AES V + S
Sbjct: 2 RVGIVGAGKI-GRRHLRALNESQDGAELVGVLDPDPA-RAEAVAESFGVPAY-------S 52
Query: 65 DYSDIAEAD----VCIVTAGIPRKPSMSRDDLLADNLKA-----IEK 102
D ++ V + T P +L L+A +EK
Sbjct: 53 DLEELLADPDVDAVSVAT------PPGLHFELALAALEAGKHVLVEK 93
>gnl|CDD|32077 COG1893, ApbA, Ketopantoate reductase [Coenzyme metabolism].
Length = 307
Score = 29.1 bits (65), Expect = 1.9
Identities = 27/123 (21%), Positives = 45/123 (36%), Gaps = 28/123 (22%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALD------IAESSPVEGFGA 58
KI ++G+G IG L A L K G V L + R + L+ + F
Sbjct: 2 KILILGAGAIGSLLG--ARLAKAGHDVTLLV-----RSRRLEALKKKGLRIEDEGGNFTT 54
Query: 59 QLCGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVIC 118
+ +D + AD+ IVT + ++ L + PN+ V+
Sbjct: 55 PVVAATDAEALGPADLVIVTV-----KAYQLEEALPSLAPLL----------GPNTVVLF 99
Query: 119 ITN 121
+ N
Sbjct: 100 LQN 102
>gnl|CDD|145605 pfam02558, ApbA, Ketopantoate reductase PanE/ApbA. This is a
family of 2-dehydropantoate 2-reductases also known as
ketopantoate reductases, EC:1.1.1.169. The reaction
catalysed by this enzyme is: (R)-pantoate + NADP(+) <=>
2-dehydropantoate + NADPH. AbpA catalyses the NADPH
reduction of ketopantoic acid to pantoic acid in the
alternative pyrimidine biosynthetic (APB) pathway. ApbA
and PanE are allelic. ApbA, the ketopantoate reductase
enzyme is required for the synthesis of thiamine via the
APB biosynthetic pathway.
Length = 150
Score = 29.1 bits (66), Expect = 1.9
Identities = 28/124 (22%), Positives = 48/124 (38%), Gaps = 31/124 (25%)
Query: 6 IALIGSGMIGGTLAHLAVLKKLG-DVVLLDIVDGMPRGKALD-IAES-SPVEGFGAQLC- 61
IA++G+G +G L + G DV L+ RG+ L+ I E+ + G +
Sbjct: 1 IAILGAGAVGSLYGAR--LARAGHDVTLIA------RGRHLEAIRENGLRITSPGGERTV 52
Query: 62 ----GTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVI 117
TS ++ AD+ IV + + L D + PN+ V+
Sbjct: 53 PPPVATSASEELGPADLVIVAV-----KAYQTAEALEDLAPLL----------GPNTVVL 97
Query: 118 CITN 121
+ N
Sbjct: 98 LLQN 101
>gnl|CDD|176665 cd07241, Glo_EDI_BRP_like_3, This conserved domain belongs to a
superfamily including the bleomycin resistance protein,
glyoxalase I, and type I ring-cleaving dioxygenases.
This protein family belongs to a conserved domain
superfamily that is found in a variety of structurally
related metalloproteins, including the bleomycin
resistance protein, glyoxalase I, and type I
ring-cleaving dioxygenases. A bound metal ion is
required for protein activities for the members of this
superfamily. A variety of metal ions have been found in
the catalytic centers of these proteins including
Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein
superfamily contains members with or without domain
swapping. The proteins of this family share three
conserved metal binding amino acids with the type I
extradiol dioxygenases, which shows no domain swapping.
Length = 125
Score = 28.7 bits (65), Expect = 1.9
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 193 PVSDLVKLGWT-------TQEKIDQIVKRTREGGAEIVGLLR-SGSAYY 233
++ + GW ++E +D++ +R R G I+G R +G YY
Sbjct: 62 SPNEGERTGWAHLAFSVGSKEAVDELTERLRADGYLIIGEPRTTGDGYY 110
>gnl|CDD|34835 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in
mRNA processing and transport [Signal transduction
mechanisms / RNA processing and modification].
Length = 388
Score = 28.9 bits (64), Expect = 2.0
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 1 MKSNKIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVD 37
+ +N + I G IG L HLA KK D L++V
Sbjct: 127 LNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVI 163
>gnl|CDD|146194 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family
comprised of three structural domains that can not be
separated in the linear sequence. In some organisms
this enzyme is found as a bifunctional polypeptide with
lysine ketoglutarate reductase. The saccharopine
dehydrogenase can also function as a saccharopine
reductase.
Length = 384
Score = 28.8 bits (65), Expect = 2.2
Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 7/75 (9%)
Query: 6 IALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTSD 65
+ +IG+G +G +A L L + GDV + + D KA +A F A +
Sbjct: 1 VLIIGAGGVGQGVAPL--LARHGDVDEITVADRSLE-KAQALAAPKLGLRFIAIAVDADN 57
Query: 66 YSD----IAEADVCI 76
Y + E D+ I
Sbjct: 58 YEALAALLKEGDLVI 72
>gnl|CDD|176197 cd08235, iditol_2_DH_like, L-iditol 2-dehydrogenase. Putative
L-iditol 2-dehydrogenase based on annotation of some
members in this subgroup. L-iditol 2-dehydrogenase
catalyzes the NAD+-dependent conversion of L-iditol to
L-sorbose in fructose and mannose metabolism. This
enzyme is related to sorbitol dehydrogenase, alcohol
dehydrogenase, and other medium chain
dehydrogenase/reductases. The zinc-dependent alcohol
dehydrogenase (ADH-Zn)-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) to highlight its broad range of activities
and to distinguish from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal GroES-like catalytic
domain. The MDR group contains a host of activities,
including the founding alcohol dehydrogenase (ADH),
quinone reductase, sorbitol dehydrogenase, formaldehyde
dehydrogenase, butanediol DH, ketose reductase, cinnamyl
reductase, and numerous others. The zinc-dependent
alcohol dehydrogenases (ADHs) catalyze the
NAD(P)(H)-dependent interconversion of alcohols to
aldehydes or ketones. Active site zinc has a catalytic
role, while structural zinc aids in stability. ADH-like
proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
generally have 2 tightly bound zinc atoms per subunit.
The active site zinc is coordinated by a histidine, two
cysteines, and a water molecule. The second zinc seems
to play a structural role, affects subunit interactions,
and is typically coordinated by 4 cysteines.
Length = 343
Score = 28.7 bits (65), Expect = 2.2
Identities = 27/110 (24%), Positives = 41/110 (37%), Gaps = 28/110 (25%)
Query: 6 IALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTSD 65
+ +IG+G IG A LA V++ D+ + L+ A + GA +
Sbjct: 169 VLVIGAGPIGLLHAMLAKASGARKVIVSDLNE-----FRLEFA-----KKLGADYTIDAA 218
Query: 66 YSDIAE----------ADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGA 105
D+ E ADV IV G P + A L+ + K G
Sbjct: 219 EEDLVEKVRELTDGRGADVVIVATGSP--------EAQAQALELVRKGGR 260
>gnl|CDD|32268 COG2085, COG2085, Predicted dinucleotide-binding enzymes [General
function prediction only].
Length = 211
Score = 28.3 bits (63), Expect = 2.6
Identities = 31/121 (25%), Positives = 47/121 (38%), Gaps = 25/121 (20%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTS 64
IA+IG+G IG LA +++ G RG A ++ G + G S
Sbjct: 3 IIAIIGTGNIGSALALRLAKAG------HEVIIGSSRGPK---ALAAAAAALGPLITGGS 53
Query: 65 DYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAPNSFVICITNPLD 124
+ A ADV ++ +P +AI V A +R VI TNP++
Sbjct: 54 NEDAAALADVVVLA--VP--------------FEAIPDVLAELRDALGGKIVIDATNPIE 97
Query: 125 A 125
Sbjct: 98 V 98
>gnl|CDD|30999 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and
related FAD-dependent oxidoreductases [Coenzyme
metabolism / Energy production and conversion].
Length = 387
Score = 28.1 bits (62), Expect = 3.0
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 2 KSNKIALIGSGMIGGTLAHLAVLKKLG-DVVLLD--IVDGMPRGKALDIAESS 51
K +A++G+G G LA L + G DV LL+ + + RG+ + ++ ++
Sbjct: 1 KMLDVAIVGAGPAGLALALA--LARAGLDVTLLERAPRELLERGRGIALSPNA 51
>gnl|CDD|39589 KOG4388, KOG4388, KOG4388, Hormone-sensitive lipase HSL [Lipid
transport and metabolism].
Length = 880
Score = 28.1 bits (62), Expect = 3.0
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 24 LKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLC 61
L+ LG V L +++ +P G L+ S A+LC
Sbjct: 811 LRNLGQPVTLRVLEDLPHG-FLNFTALSRETRQAAELC 847
>gnl|CDD|73368 cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like)
FMN-binding domain. Members of this family catalyze the
reduction of the 5,6-double bond of a uridine residue on
tRNA. Dihydrouridine modification of tRNA is widely
observed in prokaryotes and eukaryotes, and also in some
archaea. Most dihydrouridines are found in the D loop of
t-RNAs. The role of dihydrouridine in tRNA is currently
unknown, but may increase conformational flexibility of
the tRNA. It is likely that different family members
have different substrate specificities, which may
overlap. 1VHN, a putative flavin oxidoreductase, has
high sequence similarity to DUS. The enzymatic
mechanism of 1VHN is not known at the present..
Length = 231
Score = 27.4 bits (61), Expect = 4.7
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 189 VSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIV 223
IPV+ ++LGW +E+ ++ K + GA +
Sbjct: 121 AVPIPVTVKIRLGWDDEEETLELAKALEDAGASAL 155
>gnl|CDD|176217 cd08255, 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_like,
2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and
other MDR family members. This subgroup of the medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family has members identified
as 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A
dehydrogenase and alcohol dehydrogenases. The medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 277
Score = 27.6 bits (62), Expect = 5.1
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 7/78 (8%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGTS 64
++A++G G++G A LA +VV +D ++AE+ A T+
Sbjct: 100 RVAVVGLGLVGLLAAQLAKAAGAREVVGVDPDA-----ARRELAEALGPADPVAAD--TA 152
Query: 65 DYSDIAEADVCIVTAGIP 82
D ADV I +G P
Sbjct: 153 DEIGGRGADVVIEASGSP 170
>gnl|CDD|145966 pfam03102, NeuB, NeuB family. NeuB is the prokaryotic
N-acetylneuraminic acid (Neu5Ac) synthase. It catalyses
the direct formation of Neu5Ac (the most common sialic
acid) by condensation of phosphoenolpyruvate (PEP) and
N-acetylmannosamine (ManNAc). This reaction has only
been observed in prokaryotes; eukaryotes synthesize the
9-phosphate form, Neu5Ac-9-P, and utilize ManNAc-6-P
instead of ManNAc. Such eukaryotic enzymes are not
present in this family. This family also contains SpsE
spore coat polysaccharide biosynthesis proteins.
Length = 240
Score = 27.4 bits (62), Expect = 5.2
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 182 PMLRYATVSGIPVSDLVKLGWTTQEKIDQIVKRTREGGAEIVGLLRSGSAYYAPASSA 239
P+LRY +G PV ++ G T E+I++ V+ RE G E + LL S Y AP
Sbjct: 104 PLLRYIAKTGKPV--ILSTGMATLEEIEEAVETLREAGNEDITLLHCTSEYPAPFEDV 159
>gnl|CDD|73198 cd00368, Molybdopterin-Binding, Molybdopterin-Binding (MopB) domain
of the MopB superfamily of proteins, a large, diverse,
heterogeneous superfamily of enzymes that, in general,
bind molybdopterin as a cofactor. The MopB domain is
found in a wide variety of molybdenum- and
tungsten-containing enzymes, including formate
dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of
nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide
reductase (DMSOR), thiosulfate reductase,
formylmethanofuran dehydrogenase, and arsenite oxidase.
Molybdenum is present in most of these enzymes in the
form of molybdopterin, a modified pterin ring with a
dithiolene side chain, which is responsible for ligating
the Mo. In many bacterial and archaeal species,
molybdopterin is in the form of a dinucleotide, with two
molybdopterin dinucleotide units per molybdenum. These
proteins can function as monomers, heterodimers, or
heterotrimers, depending on the protein and organism.
Also included in the MopB superfamily is the
eukaryotic/eubacterial protein domain family of the
75-kDa subunit/Nad11/NuoG (second domain) of respiratory
complex 1/NADH-quinone oxidoreductase which is
postulated to have lost an ancestral formate
dehydrogenase activity and only vestigial sequence
evidence remains of a molybdopterin binding site..
Length = 374
Score = 26.9 bits (59), Expect = 6.7
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 4 NKIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGT 63
+ IA G G A+L L+KL + + VD R + G GA T
Sbjct: 94 DAIAFYGGGGASNEEAYL--LQKLLRALGSNNVDSHARLCHASAVAALKAFGGGA---PT 148
Query: 64 SDYSDIAEADVCIV 77
+ +DI AD+ ++
Sbjct: 149 NTLADIENADLILL 162
>gnl|CDD|133432 cd05296, GH4_P_beta_glucosidase, Glycoside Hydrolases Family 4;
Phospho-beta-glucosidase. 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
phospho-beta-glucosidases. Other organisms (such as
archaea and Thermotoga maritima ) lack the PEP-PTS
system, but have several enzymes normally associated
with the PEP-PTS operon. The 6-phospho-beta-glucosidase
from Thermotoga maritima hydrolylzes cellobiose
6-phosphate (6P) into glucose-6P and glucose, in an NAD+
and Mn2+ dependent fashion. The Escherichia coli
6-phospho-beta-glucosidase (also called celF) hydrolyzes
a variety of phospho-beta-glucosides including
cellobiose-6P, salicin-6P, arbutin-6P, and
gentobiose-6P. Phospho-beta-glucosidases 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 = 419
Score = 26.7 bits (60), Expect = 7.8
Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 107 IRKYAPNSFVICITNPLDAMVWALQKFSGL--------PSHMVVGMAGILD 149
+ + AP++++I TNP + A+ + +G P + +A +L
Sbjct: 131 VEELAPDAWLINFTNPAGIVTEAVLRHTGDRVIGLCNVPIGLQRRIAELLG 181
>gnl|CDD|144743 pfam01262, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. This family now also contains the lysine
2-oxoglutarate reductases.
Length = 150
Score = 26.7 bits (60), Expect = 9.0
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 20/90 (22%)
Query: 5 KIALIGSGMIGGTLAHLAVLKKLG-DVVLLDIVDGMPRGKALDIAESSPVEGFGAQLCGT 63
K+ +IG G++G L A K LG V +LD+ ++ A+ T
Sbjct: 22 KVVVIGGGVVG--LGAAATAKGLGAPVTILDV----------RPERLEQLDSLFAEFVET 69
Query: 64 SDYSD-------IAEADVCIVTAGIPRKPS 86
+S+ IAEAD+ I T IP +
Sbjct: 70 DIFSNCEYLAEAIAEADLVIGTVLIPGARA 99
>gnl|CDD|37755 KOG2544, KOG2544, KOG2544, Dihydropteroate
synthase/7,
8-dihydro-6-hydroxymethylpterin-
pyrophosphokinase/Dihydroneopterin aldolase [Coenzyme
transport and metabolism].
Length = 711
Score = 26.5 bits (58), Expect = 9.0
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 54 EGFGAQLCGTSDYSDIAEADVCIVTAGIPRKPSMSRDDLLADNLKAIEKVGAGIRKYAP 112
+ F + G + D A V VTAGI ++ R + +N KA K+ I +
Sbjct: 654 KRFLGDITGDPEAKDRDAATVACVTAGILFGANIVRVHDVKNNSKAA-KLADAIYRGLE 711
>gnl|CDD|32410 COG2229, COG2229, Predicted GTPase [General function prediction
only].
Length = 187
Score = 26.5 bits (58), Expect = 9.6
Identities = 19/68 (27%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 1 MKSNKIALIGSGMIGGTLAHLAVLKKLGDVVLLDIVDGMPRGK-----ALDIAESSPVEG 55
M KI +IG G T A+ K + D +GK A+D E
Sbjct: 8 MIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED 67
Query: 56 FGAQLCGT 63
G L GT
Sbjct: 68 TGVHLFGT 75
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.136 0.391
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,745,614
Number of extensions: 200790
Number of successful extensions: 740
Number of sequences better than 10.0: 1
Number of HSP's gapped: 692
Number of HSP's successfully gapped: 69
Length of query: 320
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 226
Effective length of database: 4,232,491
Effective search space: 956542966
Effective search space used: 956542966
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: 57 (25.6 bits)