RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021646
(309 letters)
>gnl|CDD|177744 PLN00135, PLN00135, malate dehydrogenase.
Length = 309
Score = 669 bits (1729), Expect = 0.0
Identities = 283/309 (91%), Positives = 293/309 (94%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
MIARG+MLGPDQPVILHMLDI PAAEALNGVKMELIDAAFPLLKGVVATTDVVEACK VN
Sbjct: 1 MIARGVMLGPDQPVILHMLDIPPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKGVN 60
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
IAVMVGGFPRKEGMERKDVMSKNVSIYK+QASALEKHAAP+CKVLVVANPANTNALILKE
Sbjct: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAPDCKVLVVANPANTNALILKE 120
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
FAPSIP KNITCLTRLDHNRA+GQISERL V VSDVKNVIIWGNHSSTQYPDVNHATV T
Sbjct: 121 FAPSIPEKNITCLTRLDHNRALGQISERLGVPVSDVKNVIIWGNHSSTQYPDVNHATVKT 180
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
GEKPVRE VADD WLN EFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP
Sbjct: 181 PSGEKPVRELVADDAWLNGEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
Query: 241 KGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEE 300
+GTWVSMGVYSDGSYG+P GLIYSFPVTCEKGEWSIV+GL +DEFSR KMDATA+EL EE
Sbjct: 241 EGTWVSMGVYSDGSYGVPPGLIYSFPVTCEKGEWSIVQGLSIDEFSRKKMDATAKELKEE 300
Query: 301 KTLAYSCLN 309
K LAYSCL+
Sbjct: 301 KELAYSCLS 309
>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 = 599 bits (1547), Expect = 0.0
Identities = 213/305 (69%), Positives = 249/305 (81%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
MIA+G + GPDQPVILH+LDI PA +AL GV MEL D AFPLLK VVATTD EA KDV+
Sbjct: 21 MIAKGDVFGPDQPVILHLLDIPPALKALEGVVMELQDCAFPLLKSVVATTDPEEAFKDVD 80
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
+A++VG PRKEGMERKD++ NV I+K Q AL+K+A N KVLVV NPANTNALIL +
Sbjct: 81 VAILVGAMPRKEGMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGNPANTNALILLK 140
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
+APSIP +N T LTRLDHNRA QI+ +L V VSDVKNVIIWGNHSSTQYPDVNHATV
Sbjct: 141 YAPSIPKENFTALTRLDHNRAKSQIALKLGVPVSDVKNVIIWGNHSSTQYPDVNHATVEL 200
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
+ KP REAV DD WLN EFI+TVQ+RGAA+IKARKLSSA+SAA + CDH+ DW GTP
Sbjct: 201 NGKGKPAREAVKDDAWLNGEFISTVQKRGAAVIKARKLSSAMSAAKAICDHVHDWWFGTP 260
Query: 241 KGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEE 300
+G +VSMGVYSDGSYG+PEGLI+SFPVTC+ G+W IV+GL +D+FSR K+DATA+EL EE
Sbjct: 261 EGEFVSMGVYSDGSYGVPEGLIFSFPVTCKNGKWKIVQGLSIDDFSREKIDATAKELVEE 320
Query: 301 KTLAY 305
K A
Sbjct: 321 KETAL 325
>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 = 529 bits (1364), Expect = 0.0
Identities = 212/307 (69%), Positives = 250/307 (81%), Gaps = 1/307 (0%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
MIARG MLG DQP+ILH+LDI PA + L GV MEL+D AFPLL GVV T D A DV+
Sbjct: 18 MIARGRMLGKDQPIILHLLDIPPAMKVLEGVVMELMDCAFPLLDGVVPTHDPAVAFTDVD 77
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
+A++VG FPRKEGMER+D++SKNV I+K Q AL+K A +CKVLVV NPANTNAL+L
Sbjct: 78 VAILVGAFPRKEGMERRDLLSKNVKIFKEQGRALDKLAKKDCKVLVVGNPANTNALVLSN 137
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
+APSIP KN + LTRLDHNRA+ Q++ER V VSDVKNVIIWGNHSSTQYPDVNHATVT
Sbjct: 138 YAPSIPPKNFSALTRLDHNRALAQVAERAGVPVSDVKNVIIWGNHSSTQYPDVNHATVTK 197
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
+KPVREA+ DD +L+ EFITTVQQRGAAII+ARKLSSALSAA +A D + DWVLGTP
Sbjct: 198 GGKQKPVREAIKDDAYLDGEFITTVQQRGAAIIRARKLSSALSAAKAAVDQMHDWVLGTP 257
Query: 241 KGTWVSMGVYSDGS-YGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAE 299
+GT+VSMGVYSDGS YG+P+GLI+SFPVTC+ GEW IV+GL VD+ SR K+ TA+EL E
Sbjct: 258 EGTFVSMGVYSDGSPYGVPKGLIFSFPVTCKNGEWKIVEGLCVDDSSRKKLALTAKELEE 317
Query: 300 EKTLAYS 306
E+ A S
Sbjct: 318 ERDEALS 324
>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 = 503 bits (1296), Expect = 0.0
Identities = 195/306 (63%), Positives = 230/306 (75%), Gaps = 6/306 (1%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
IA G + G DQPV+LH+LDI PA +AL GV MEL D AFPLL GVVATTD EA KDV+
Sbjct: 22 RIASGELFGKDQPVVLHLLDIPPAMKALEGVAMELEDCAFPLLAGVVATTDPEEAFKDVD 81
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
A++VG FPRK GMER D++SKN I+K Q AL K A + KVLVV NPANTNALI +
Sbjct: 82 AALLVGAFPRKPGMERADLLSKNGKIFKEQGKALNKVAKKDVKVLVVGNPANTNALIASK 141
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
AP IP KN + +TRLDHNRA Q++ + V VSDVKNVIIWGNHS+TQ PD HATV
Sbjct: 142 NAPDIPPKNFSAMTRLDHNRAKYQLAAKAGVPVSDVKNVIIWGNHSNTQVPDFTHATVDG 201
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
+PV+E + DD WL EFI TVQQRGAA+I+AR SSA SAA++A DH+RDWV GTP
Sbjct: 202 ----RPVKEVIKDDKWLEGEFIPTVQQRGAAVIEARGASSAASAANAAIDHVRDWVTGTP 257
Query: 241 KGTWVSMGVYSDG-SYGIPEGLIYSFPVTCEK-GEWSIVKGLKVDEFSRAKMDATAEELA 298
+G WVSMGVYSDG YGIPEG+I+SFPVTC+ GEW IV+GL +D+F R K+DAT +EL
Sbjct: 258 EGDWVSMGVYSDGNPYGIPEGIIFSFPVTCKGDGEWEIVEGLPLDDFVRGKLDATEDELL 317
Query: 299 EEKTLA 304
EEK A
Sbjct: 318 EEKEEA 323
>gnl|CDD|235468 PRK05442, PRK05442, malate dehydrogenase; Provisional.
Length = 326
Score = 490 bits (1264), Expect = e-176
Identities = 181/300 (60%), Positives = 223/300 (74%), Gaps = 4/300 (1%)
Query: 2 IARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNI 61
IA G MLG DQPVIL +L+I PA +AL GV MEL D AFPLL GVV T D A KD ++
Sbjct: 24 IASGDMLGKDQPVILQLLEIPPALKALEGVVMELDDCAFPLLAGVVITDDPNVAFKDADV 83
Query: 62 AVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEF 121
A++VG PR GMERKD++ N +I+ AQ AL + AA + KVLVV NPANTNALI +
Sbjct: 84 ALLVGARPRGPGMERKDLLEANGAIFTAQGKALNEVAARDVKVLVVGNPANTNALIAMKN 143
Query: 122 APSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTS 181
AP +PA+N T +TRLDHNRA+ Q++ + V V+D+K + +WGNHS+TQYPD HAT+
Sbjct: 144 APDLPAENFTAMTRLDHNRALSQLAAKAGVPVADIKKMTVWGNHSATQYPDFRHATI--- 200
Query: 182 KGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPK 241
KP E + D WL FI TVQ+RGAAII+AR SSA SAA++A DH+RDWVLGTP+
Sbjct: 201 -DGKPAAEVINDQAWLEDTFIPTVQKRGAAIIEARGASSAASAANAAIDHVRDWVLGTPE 259
Query: 242 GTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEEK 301
G WVSMGV SDGSYGIPEGLI+ FPVTCE GE+ IV+GL++D+FSR K+DAT EL EE+
Sbjct: 260 GDWVSMGVPSDGSYGIPEGLIFGFPVTCENGEYEIVQGLEIDDFSREKIDATLAELEEER 319
>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 = 470 bits (1213), Expect = e-169
Identities = 182/304 (59%), Positives = 223/304 (73%), Gaps = 2/304 (0%)
Query: 2 IARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNI 61
IA G + G DQPVILH+LDI PA +AL GV MEL D AFPLLKGVV TTD EA KDV++
Sbjct: 20 IASGELFGDDQPVILHLLDIPPAMKALEGVVMELQDCAFPLLKGVVITTDPEEAFKDVDV 79
Query: 62 AVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEF 121
A++VG FPRK GMER D++ KN I+K Q AL K A P KVLVV NPANTNALI +
Sbjct: 80 AILVGAFPRKPGMERADLLRKNAKIFKEQGEALNKVAKPTVKVLVVGNPANTNALIALKN 139
Query: 122 APSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTS 181
AP++P KN T LTRLDHNRA Q++ +L V VSDVKNVIIWGNHS+TQ PD+++A V
Sbjct: 140 APNLPPKNFTALTRLDHNRAKAQVARKLGVRVSDVKNVIIWGNHSNTQVPDLSNAVVYGP 199
Query: 182 KGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPK 241
G + V + D+ WLN EF+ TVQ+RGAAIIK R SSA SAA + DH++DW+ GTP
Sbjct: 200 GGTEWV-LDLLDEEWLNDEFVKTVQKRGAAIIKKRGASSAASAAKAIADHVKDWLFGTPP 258
Query: 242 GTWVSMGVYSDG-SYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEE 300
G VSMGVYS G YGIP G+++SFP TC+ G W +V+ LK++++ R K+ AT EEL EE
Sbjct: 259 GEIVSMGVYSPGNPYGIPPGIVFSFPCTCKGGGWHVVEDLKLNDWLREKLKATEEELIEE 318
Query: 301 KTLA 304
K +A
Sbjct: 319 KEIA 322
>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 = 470 bits (1213), Expect = e-169
Identities = 173/301 (57%), Positives = 213/301 (70%), Gaps = 4/301 (1%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
IA G M GPDQPVIL +L++ A +AL GV MEL D AFPLL +V T D A KD +
Sbjct: 21 RIASGEMFGPDQPVILQLLELPQALKALEGVAMELEDCAFPLLAEIVITDDPNVAFKDAD 80
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
A++VG PR GMER D++ N I+ AQ AL A+ + KVLVV NP NTNALI +
Sbjct: 81 WALLVGAKPRGPGMERADLLKANGKIFTAQGKALNDVASRDVKVLVVGNPCNTNALIAMK 140
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
AP IP N T +TRLDHNRA Q++++ V V+DVKN++IWGNHS TQYPD +AT+
Sbjct: 141 NAPDIPPDNFTAMTRLDHNRAKSQLAKKAGVPVTDVKNMVIWGNHSPTQYPDFTNATI-- 198
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
G KP E + D WL EFI TVQ+RGAAIIKAR SSA SAA++A DH+RDWVLGTP
Sbjct: 199 --GGKPAAEVINDRAWLEDEFIPTVQKRGAAIIKARGASSAASAANAAIDHMRDWVLGTP 256
Query: 241 KGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEE 300
+G W SM V SDGSYGIPEGLI+SFPV + G + IV+GL++D+F+R K+DAT EL EE
Sbjct: 257 EGDWFSMAVPSDGSYGIPEGLIFSFPVRSKGGGYEIVEGLEIDDFAREKIDATLAELLEE 316
Query: 301 K 301
+
Sbjct: 317 R 317
>gnl|CDD|215060 PLN00112, PLN00112, malate dehydrogenase (NADP); Provisional.
Length = 444
Score = 292 bits (750), Expect = 6e-97
Identities = 136/305 (44%), Positives = 183/305 (60%), Gaps = 10/305 (3%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
+A G + GPDQP+ L +L E + +AL GV MEL D+ +PLL+ V D E +D
Sbjct: 119 KLASGEVFGPDQPIALKLLGSERSKQALEGVAMELEDSLYPLLREVSIGIDPYEVFQDAE 178
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
A+++G PR GMER D++ N I+ Q AL + A+ N KV+VV NP NTNALI +
Sbjct: 179 WALLIGAKPRGPGMERADLLDINGQIFAEQGKALNEVASRNVKVIVVGNPCNTNALICLK 238
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
AP+IPAKN LTRLD NRA Q++ + V V NV IWGNHS+TQ PD +A +
Sbjct: 239 NAPNIPAKNFHALTRLDENRAKCQLALKAGVFYDKVSNVTIWGNHSTTQVPDFLNAKI-- 296
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
PV+E + D WL EF VQ+RG +IK SSA S A S D I+ V TP
Sbjct: 297 --NGLPVKEVITDHKWLEEEFTPKVQKRGGVLIKKWGRSSAASTAVSIADAIKSLVTPTP 354
Query: 241 KGTWVSMGVYSDGS-YGIPEGLIYSFPVTCEK---GEWSIVKGLKVDEFSRAKMDATAEE 296
+G W S GVY+DG+ YGI EGL++S P C G++ IVK +++D++ R ++ + E
Sbjct: 355 EGDWFSTGVYTDGNPYGIAEGLVFSMP--CRSKGDGDYEIVKDVEIDDYLRERIKKSEAE 412
Query: 297 LAEEK 301
L EK
Sbjct: 413 LLAEK 417
>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 = 268 bits (687), Expect = 3e-89
Identities = 117/310 (37%), Positives = 180/310 (58%), Gaps = 5/310 (1%)
Query: 2 IARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNI 61
IA G + G ++PV LH+L+I PA L + MEL D AFP L G + TT + EA KD++
Sbjct: 5 IANGDLYG-NRPVCLHLLEIPPALNRLEALAMELEDCAFPNLAGTIVTTKLEEAFKDIDC 63
Query: 62 AVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEF 121
A +V P K G R D+++KN I+KA AL ++A P KVLV+ NP NTN L+
Sbjct: 64 AFLVASVPLKPGEVRADLLTKNTPIFKATGEALSEYAKPTVKVLVIGNPVNTNCLVAMLH 123
Query: 122 APSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTS 181
AP + A+N + L LDHNRA+ +I+ +LKV V + +V++WGNH+ + D+ HA T +
Sbjct: 124 APKLSAENFSSLCMLDHNRAVSRIASKLKVPVDHIYHVVVWGNHAESMVADLTHAEFTKN 183
Query: 182 KGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPK 241
+ V + + D + +F + QR I++ R +SA S ++ H++ W+ GT
Sbjct: 184 GKHQKVFDELCRD-YPEPDFFEVIAQRAWKILEMRGFTSAASPVKASLQHMKAWLFGTRP 242
Query: 242 GTWVSMG--VYSDGSYGIPEGLIYSFPVTC-EKGEWSIVKGLKVDEFSRAKMDATAEELA 298
G +SMG V YGI G+I+SFP T E G+ +V+ +++ + + K+ T ++L
Sbjct: 243 GEVLSMGIPVPEGNPYGIKPGVIFSFPCTVDEDGKVHVVENFELNPWLKTKLAQTEKDLF 302
Query: 299 EEKTLAYSCL 308
EE+ A L
Sbjct: 303 EERETALKAL 312
>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 = 270 bits (692), Expect = 5e-89
Identities = 136/303 (44%), Positives = 186/303 (61%), Gaps = 6/303 (1%)
Query: 1 MIARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVN 60
M+A G + G DQP+ L +L E + EAL GV MEL D+ +PLL+ V D E +D +
Sbjct: 63 MLASGEVFGQDQPIALKLLGSERSKEALEGVAMELEDSLYPLLREVSIGIDPYEVFEDAD 122
Query: 61 IAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKE 120
A+++G PR GMER D++ N I+ Q AL A+ NCKVLVV NP NTNALI +
Sbjct: 123 WALLIGAKPRGPGMERADLLDINGQIFADQGKALNAVASKNCKVLVVGNPCNTNALIAMK 182
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
AP+IP KN LTRLD NRA Q++ + + V NV IWGNHS+TQ PD +A +
Sbjct: 183 NAPNIPRKNFHALTRLDENRAKCQLALKSGKFYTSVSNVTIWGNHSTTQVPDFVNAKI-- 240
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTP 240
G +P +E + D WL EF TVQ+RG A+IK SSA S A S D I+ V+ TP
Sbjct: 241 --GGRPAKEVIKDTKWLEEEFTPTVQKRGGALIKKWGRSSAASTAVSIADAIKSLVVPTP 298
Query: 241 KGTWVSMGVYSDGS-YGIPEGLIYSFPVTCE-KGEWSIVKGLKVDEFSRAKMDATAEELA 298
+G W S GVY+DG+ YGI EGL++S P + G++ + + +D+F R ++ + +EL
Sbjct: 299 EGDWFSTGVYTDGNPYGIAEGLVFSMPCRSKGDGDYELATDVSMDDFLRERIRKSEDELL 358
Query: 299 EEK 301
+EK
Sbjct: 359 KEK 361
>gnl|CDD|133431 cd05295, MDH_like, Malate dehydrogenase-like. These MDH-like
proteins are related to other groups in the MDH family
but do not have conserved substrate and cofactor binding
residues. 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
subgroup are uncharacterized MDH-like proteins from
animals. 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 = 452
Score = 250 bits (640), Expect = 2e-80
Identities = 106/312 (33%), Positives = 169/312 (54%), Gaps = 13/312 (4%)
Query: 2 IARGIMLGPDQPVILHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNI 61
+A G + G ++ + +H+LD E L G+ ME+ D AFPLL+G+ TTD+ A KD ++
Sbjct: 143 LASGEVFGMEEEISIHLLDSPENLEKLKGLVMEVEDLAFPLLRGISVTTDLDVAFKDAHV 202
Query: 62 AVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVA-NPANTNALILKE 120
V++ F KEG + + + V+I + +EK+A + KV+V N IL +
Sbjct: 203 IVLLDDFLIKEGEDLEGCIRSRVAICQLYGPLIEKNAKEDVKVIVAGRTFLNLKTSILIK 262
Query: 121 FAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTT 180
+APSIP KNI + RL NRA ++ +L V+ + +K+VI+WGN Y D++ A V
Sbjct: 263 YAPSIPRKNIIAVARLQENRAKALLARKLNVNSAGIKDVIVWGNIGGNTYIDLSKARVYR 322
Query: 181 SKG--------EKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHI 232
+PV E V D W+N EF+ T++ ++ +A+S A + +
Sbjct: 323 YDSAIWGPPNYSRPVLELVHDSKWINGEFVATLKSLSSS----LNHEAAISPAHAIATTL 378
Query: 233 RDWVLGTPKGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDA 292
W G+P G S+GV S+G YGIPEG+++S PV + G W +V L++ E R +
Sbjct: 379 SYWYHGSPPGEIFSLGVISEGWYGIPEGIVFSMPVKFQNGSWEVVTDLELSEILREVLKR 438
Query: 293 TAEELAEEKTLA 304
+L +EK +A
Sbjct: 439 ITSDLIQEKLVA 450
>gnl|CDD|223117 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 217 bits (555), Expect = 3e-69
Identities = 94/292 (32%), Positives = 138/292 (47%), Gaps = 15/292 (5%)
Query: 16 LHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDV-VEACKDVNIAVMVGGFPRKEGM 74
L ++DI E GV ++L AA PL V T D E K +I V+ G PRK GM
Sbjct: 28 LVLIDINE--EKAEGVALDLSHAAAPLGSDVKITGDGDYEDLKGADIVVITAGVPRKPGM 85
Query: 75 ERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPAKNITCLT 134
R D++ KN I K A A+ K+A P+ VLVV NP + I +F+ + I T
Sbjct: 86 TRLDLLEKNAKIVKDIAKAIAKYA-PDAIVLVVTNPVDILTYIAMKFSGFPKNRVIGSGT 144
Query: 135 RLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTSKGEKPVREAV-AD 193
LD R ++E+L V DV +I G H T P + ATV G KP+ E + D
Sbjct: 145 VLDSARFRTFLAEKLGVSPKDVHAYVI-GEHGDTMVPLWSQATV----GGKPLEELLKED 199
Query: 194 DNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPKGTWVSMGVYSDG 253
E I V+ GA II+A+ + A++ + + + + + VY DG
Sbjct: 200 TEEDLEELIERVRNAGAEIIEAKGAGTYYGPAAALARMVEAILRD--EKRVLPVSVYLDG 257
Query: 254 SYGIPEGLIYSFPVT-CEKGEWSIVKGLKVDEFSRAKMDATAEELAEEKTLA 304
YG+ E + + P + G I++ L D+ + K+D +AEEL + L
Sbjct: 258 EYGV-EDVYFGVPAVLGKNGVEEILELLLSDD-EQEKLDKSAEELKKNIELV 307
>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 = 181 bits (462), Expect = 5e-56
Identities = 76/294 (25%), Positives = 124/294 (42%), Gaps = 54/294 (18%)
Query: 9 GPDQPVILHMLDIEPAAEALNGVKMELIDAAFPL-LKGVVATTDVVEACKDVNIAVMVGG 67
+ L + DI+ E L GV M+L DA PL V T D EA KD ++ ++ G
Sbjct: 22 SVLLAIELVLYDIDE--EKLKGVAMDLQDAVEPLADIKVSITDDPYEAFKDADVVIITAG 79
Query: 68 FPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPA 127
RK GM R D++ +NV I K +EK+ +P+ ++VV+NP + ++ ++ +P
Sbjct: 80 VGRKPGMGRLDLLKRNVPIVKEIGDNIEKY-SPDAWIIVVSNPVDIITYLVWRYSG-LPK 137
Query: 128 KNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTSKGEKPV 187
+ + L LD R ++E+L V DVK V I G H +Q PD +
Sbjct: 138 EKVIGLGTLDPIRFRRILAEKLGVDPDDVK-VYILGEHGGSQVPDWSTVR---------- 186
Query: 188 REAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPKGTWVSM 247
A+S D IR + +G + +
Sbjct: 187 ------------------------------------IATSIADLIRSLL--NDEGEILPV 208
Query: 248 GVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEEK 301
GV ++G GIP+ ++ S P K + + +F K+ +A+ L +E
Sbjct: 209 GVRNNGQIGIPDDVVVSVPCIVGKNGVEEPIEVGLTDFELEKLQKSADTLKKEL 262
>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 = 162 bits (412), Expect = 1e-49
Identities = 61/172 (35%), Positives = 91/172 (52%), Gaps = 4/172 (2%)
Query: 134 TRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTSKGEKPVREAVAD 193
T LD RA ++E+ V NV + G HS TQ+PD +HA VT V+E + D
Sbjct: 1 TTLDTARARTFLAEKFGV-DPRSVNVYVIGEHSGTQFPDWSHAKVTIIPLISQVKENLKD 59
Query: 194 DNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPKGTWVSMGVYSDG 253
+W E I VQ G +I+A+ S+ S A +A + + GT G +S+GVY DG
Sbjct: 60 TDWELEELIERVQNAGYEVIEAKAGSTTYSMAYAAARIAKAILRGT--GGVLSVGVYLDG 117
Query: 254 SYGIPEGLIYSFPVTCEK-GEWSIVKGLKVDEFSRAKMDATAEELAEEKTLA 304
YG P+ + +S PV K G +V+ L +++F R K++ +A EL +E
Sbjct: 118 YYGSPDDIYFSVPVVLGKDGVEKVVEILPLNDFEREKLEKSAAELKKEIEKG 169
>gnl|CDD|200963 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyze the conversion of L-lactate to pyruvate,
the last step in anaerobic glycolysis.
L-2-hydroxyisocaproate dehydrogenases are also members
of the family. Malate dehydrogenases catalyze the
interconversion of malate to oxaloacetate. The enzyme
participates in the citric acid cycle. L-lactate
dehydrogenase is also found as a lens crystallin in bird
and crocodile eyes. N-terminus (this family) is a
Rossmann NAD-binding fold. C-terminus is an unusual
alpha+beta fold.
Length = 142
Score = 115 bits (290), Expect = 6e-32
Identities = 38/117 (32%), Positives = 59/117 (50%), Gaps = 3/117 (2%)
Query: 16 LHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGME 75
L ++DI + GV M+L + L + D EA KD ++ V+ G PRK GM
Sbjct: 29 LVLVDINK--DKAEGVAMDLSHGSTFLSVPGIVGGDDYEALKDADVVVITAGVPRKPGMT 86
Query: 76 RKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPAKNITC 132
R D++++N I+K A+ K AP+ VLVV+NP + I + + P + I
Sbjct: 87 RLDLLNRNAGIFKDIVPAIAKS-APDAIVLVVSNPVDILTYIAWKVSGLPPERVIGS 142
>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 = 81.5 bits (202), Expect = 8e-18
Identities = 72/284 (25%), Positives = 126/284 (44%), Gaps = 16/284 (5%)
Query: 18 MLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGMERK 77
++D+ E G ++L A+ L G + D +I V+ G PRK G R
Sbjct: 28 LVDVNE--EKAKGDALDLSHASAFLATGTIVRGGDYADAADADIVVITAGAPRKPGETRL 85
Query: 78 DVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPAKNITCLTRLD 137
D++++N I ++ + L+K+ P+ +LVV+NP + + ++ + + I T LD
Sbjct: 86 DLINRNAPILRSVITNLKKY-GPDAIILVVSNPVDILTYVAQKLSGLPKNRVIGSGTLLD 144
Query: 138 HNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTSKGEKPVREAVADDNWL 197
R ++E+L V V ++ G H +Q + ATV G P+ E
Sbjct: 145 SARFRSLLAEKLDVDPQSVHAYVL-GEHGDSQVVAWSTATV----GGLPLEELAPFTKLD 199
Query: 198 NTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPKGTWVSMGVYSDGSYGI 257
V+ G II+ K ++ A++ D ++ +L + + + +G YGI
Sbjct: 200 LEAIEEEVRTSGYEIIR-LKGATNYGIATAIADIVKS-ILLDERRV-LPVSAVQEGQYGI 256
Query: 258 PEGLIYSFP-VTCEKGEWSIVKG-LKVDEFSRAKMDATAEELAE 299
E + S P V +G I++ L DE AK+ +AE L E
Sbjct: 257 -EDVALSVPAVVGREGVVRILEIPLTEDE--EAKLQKSAEALKE 297
>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 = 79.1 bits (196), Expect = 6e-17
Identities = 68/266 (25%), Positives = 109/266 (40%), Gaps = 35/266 (13%)
Query: 46 VVATTDVVEACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVL 105
V T D E ++ V+ G PRK GM R D++ N I K A ++K+ APN V+
Sbjct: 55 VTGTNDY-EDIAGSDVVVITAGIPRKPGMSRDDLLGTNAKIVKEVAENIKKY-APNAIVI 112
Query: 106 VVANPANTNALILKEFAPSIPAKNITCLTRLDHNRAMGQ------------ISERLKVHV 153
VV NP + + + + NR +G I+E L V V
Sbjct: 113 VVTNPLDVMTYVAYKA------------SGFPRNRVIGMAGVLDSARFRYFIAEELGVSV 160
Query: 154 SDVKNVIIWGNHSSTQYPDVNHATVTTSKGEKPVREAVADDNWLNTEFITTVQQRGAAII 213
DV+ +++ G H T P ++TV G P+ E + + E + + GA I+
Sbjct: 161 KDVQAMVL-GGHGDTMVPLPRYSTV----GGIPLTELITKEEI--DEIVERTRNGGAEIV 213
Query: 214 KARKLSSALSAASSACDHIRDWVLGTPKGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGE 273
K SA A ++A + + +L K Y +G YGI + + PV K
Sbjct: 214 NLLKTGSAYYAPAAAIAEMVEAILKDKKRVLPC-SAYLEGEYGI-KDIFVGVPVVLGKNG 271
Query: 274 WSIVKGLKVDEFSRAKMDATAEELAE 299
+ L + + + D + E + E
Sbjct: 272 VEKIIELDLTDEEKEAFDKSVESVKE 297
>gnl|CDD|180477 PRK06223, PRK06223, malate dehydrogenase; Reviewed.
Length = 307
Score = 73.6 bits (182), Expect = 5e-15
Identities = 66/259 (25%), Positives = 115/259 (44%), Gaps = 36/259 (13%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
E ++ V+ G PRK GM R D++ N I K A ++K+ AP+ V+VV NP +
Sbjct: 66 EDIAGSDVVVITAGVPRKPGMSRDDLLGINAKIMKDVAEGIKKY-APDAIVIVVTNPVDA 124
Query: 114 -NALILKEFAPSIPAKNITCLTRLDHNRAMGQ------------ISERLKVHVSDVKNVI 160
+ LKE + NR +G I+E L V V DV +
Sbjct: 125 MTYVALKE-------------SGFPKNRVIGMAGVLDSARFRTFIAEELNVSVKDVTAFV 171
Query: 161 IWGNHSSTQYPDVNHATVTTSKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSS 220
+ G H + P V ++TV G P+ + ++ + L+ E + ++ GA I+ K S
Sbjct: 172 L-GGHGDSMVPLVRYSTV----GGIPLEDLLSKEK-LD-EIVERTRKGGAEIVGLLKTGS 224
Query: 221 ALSAASSACDHIRDWVLGTPKGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGL 280
A A +++ + + +L K + Y +G YG+ + + PV K + L
Sbjct: 225 AYYAPAASIAEMVEAILKD-KKRVLPCSAYLEGEYGV-KDVYVGVPVKLGKNGVEKIIEL 282
Query: 281 KVDEFSRAKMDATAEELAE 299
++D+ +A D + E + +
Sbjct: 283 ELDDEEKAAFDKSVEAVKK 301
>gnl|CDD|173409 PTZ00117, PTZ00117, malate dehydrogenase; Provisional.
Length = 319
Score = 73.6 bits (181), Expect = 7e-15
Identities = 61/208 (29%), Positives = 98/208 (47%), Gaps = 6/208 (2%)
Query: 50 TDVVEACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVAN 109
T+ E KD ++ V+ G RKE M R+D+++ N I K+ A +++K+ PN V+ V N
Sbjct: 65 TNNYEDIKDSDVVVITAGVQRKEEMTREDLLTINGKIMKSVAESVKKY-CPNAFVICVTN 123
Query: 110 PANTNALILKEFAPSIPAKNITCLT-RLDHNRAMGQISERLKVHVSDVKNVIIWGNHSST 168
P + + +E + IP+ I + LD +R ++E+L V DV V+I G H
Sbjct: 124 PLDCMVKVFQEKS-GIPSNKICGMAGVLDSSRFRCNLAEKLGVSPGDVSAVVI-GGHGDL 181
Query: 169 QYPDVNHATVTTSKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSA 228
P + TV V++ + +N E I + G I+K K SA A ++A
Sbjct: 182 MVPLPRYCTVNGIPLSDFVKKGAITEKEIN-EIIKKTRNMGGEIVKLLKKGSAFFAPAAA 240
Query: 229 CDHIRDWVLGTPKGTWVSMGVYSDGSYG 256
+ + L K V VY +G Y
Sbjct: 241 IVAMIEAYLKDEKRVLVC-SVYLNGQYN 267
>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 = 68.4 bits (167), Expect = 3e-13
Identities = 63/240 (26%), Positives = 110/240 (45%), Gaps = 10/240 (4%)
Query: 60 NIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILK 119
+I V+ G PRK GM R+D++S N I + + +H +PN ++VV+NP + +
Sbjct: 71 DIVVITAGLPRKPGMSREDLLSMNAGIVREVTGRIMEH-SPNPIIVVVSNPLDAMTYVAW 129
Query: 120 EFAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVT 179
+ + + I LD R I+ L V V DV ++ G H P V ++TV
Sbjct: 130 QKSGFPKERVIGQAGVLDSARFRTFIAMELGVSVQDVTACVL-GGHGDAMVPLVRYSTV- 187
Query: 180 TSKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGT 239
PV + ++ + E + ++ G I+ K SA A +++ + + +L
Sbjct: 188 ---AGIPVADLISAERI--AEIVERTRKGGGEIVNLLKQGSAYYAPAASVVEMVEAILKD 242
Query: 240 PKGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAE 299
K + Y DG YGI +G+ PV K + LK+D+ A ++ +A+ + E
Sbjct: 243 RKRV-LPCAAYLDGQYGI-DGIYVGVPVILGKNGVEHIYELKLDQSELALLNKSAKIVDE 300
>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 = 67.6 bits (166), Expect = 7e-13
Identities = 78/297 (26%), Positives = 120/297 (40%), Gaps = 32/297 (10%)
Query: 16 LHMLDIEPAAEALNGVKMEL-IDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGM 74
L ++D+ + L G M+L +AF + A D + + ++ G + EG
Sbjct: 31 LVLVDVVE--DKLKGEAMDLQHGSAFLKNPKIEADKDY-SVTANSKVVIVTAGARQNEGE 87
Query: 75 ERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSI----PAKNI 130
R D++ +NV I+K L K++ PN +LVV+NP + I+ A + + I
Sbjct: 88 SRLDLVQRNVDIFKGIIPKLVKYS-PNAILLVVSNPVD----IMTYVAWKLSGLPKHRVI 142
Query: 131 TCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYP---DVNHATVTTSKGEKPV 187
LD R I+ERL V S V II G H + P VN A V +
Sbjct: 143 GSGCNLDSARFRYLIAERLGVAPSSVHGWII-GEHGDSSVPVWSGVNVAGVRLQDLNPDI 201
Query: 188 REAVADDNWLNTEFITTVQQRGAAIIKARKLSS---ALSAASSACDHIRDWVLGTPKGTW 244
+ W E V +IK + +S LS A + D +L G
Sbjct: 202 GTDKDPEKW--KEVHKQVVDSAYEVIKLKGYTSWAIGLSVAD-----LVDAIL-RNTGRV 253
Query: 245 VSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKV--DEFSRAKMDATAEELAE 299
S+ G +GI + + S P C GE I +K E + K+ +A+ L E
Sbjct: 254 HSVSTLVKGLHGIEDEVFLSLP--CILGENGITHVIKQPLTEEEQEKLQKSADTLWE 308
>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 = 64.0 bits (156), Expect = 1e-11
Identities = 56/210 (26%), Positives = 97/210 (46%), Gaps = 29/210 (13%)
Query: 16 LHMLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDV---VEACKDV------NIAVMVG 66
++++ + E L G+++++ DA +A + ++ D+ +I ++
Sbjct: 29 INLISRPKSLEKLKGLRLDIYDA--------LAAAGIDAEIKISSDLSDVAGSDIVIITA 80
Query: 67 GFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT---NALILKEFAP 123
G PRKEGM R D+ KN I K A + + AP+ K+LVV NP + AL F
Sbjct: 81 GVPRKEGMSRLDLAKKNAKIVKKYAKQIAEF-APDTKILVVTNPVDVMTYKALKESGFDK 139
Query: 124 SIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTSKG 183
+ + T LD R I++ VH+S+V II G H + P ++ +TS G
Sbjct: 140 N---RVFGLGTHLDSLRFKVAIAKHFNVHISEVHTRII-GEHGDSMVPLIS----STSIG 191
Query: 184 EKPVREAVADDNWLNTEFITTVQQRGAAII 213
P++ ++ + + TV+ G II
Sbjct: 192 GIPIKRFPEYKDFDVEKIVETVKNAGQNII 221
>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 = 60.5 bits (147), Expect = 2e-10
Identities = 49/181 (27%), Positives = 75/181 (41%), Gaps = 19/181 (10%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
A K ++ V+ G PRK GM R D+ + N I K +A+ + P +LV+ NP N+
Sbjct: 63 NALKGADVVVIPAGVPRKPGMTRDDLFNVNAGIVKDLVAAVAES-CPKAMILVITNPVNS 121
Query: 114 N----ALILKEFAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQ 169
A +LK+ P + +T LD RA ++E LK NV + G HS
Sbjct: 122 TVPIAAEVLKKKGVYDP-NKLFGVTTLDIVRANTFVAE-LKGKDPMEVNVPVIGGHSGET 179
Query: 170 YPDVNHATVTTSKGEKPVREAVADDNWLNTEFITTVQQRGAAIIKAR--KLSSALSAASS 227
+ + EA I +Q G ++KA+ S+ LS A +
Sbjct: 180 IIPLISQCPGKVLFTEDQLEA----------LIHRIQNAGTEVVKAKAGAGSATLSMAFA 229
Query: 228 A 228
Sbjct: 230 G 230
>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 = 58.7 bits (143), Expect = 7e-10
Identities = 39/118 (33%), Positives = 61/118 (51%), Gaps = 9/118 (7%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
+A K ++ V+ G PRK GM R D+ + N I + A+A+ K P +L+++NP N+
Sbjct: 64 KALKGADVVVIPAGVPRKPGMTRDDLFNINAGIVRDLATAVAKA-CPKALILIISNPVNS 122
Query: 114 N----ALILKEFAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVK-NVIIWGNHS 166
A +LK+ P K + +T LD RA ++E L + + V VI G HS
Sbjct: 123 TVPIAAEVLKKAGVYDP-KRLFGVTTLDVVRANTFVAELLGLDPAKVNVPVI--GGHS 177
>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 = 55.3 bits (134), Expect = 8e-09
Identities = 68/302 (22%), Positives = 113/302 (37%), Gaps = 52/302 (17%)
Query: 18 MLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGMERK 77
++DI + G M+L AA L + CKD ++ V+ G P+K G R
Sbjct: 26 LIDINK--DKAEGEAMDLQHAASFLPTPKKIRSGDYSDCKDADLVVITAGAPQKPGETRL 83
Query: 78 DVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPAKNITCLTRLD 137
+++ +NV I K+ + K + LV NP + IL A L+
Sbjct: 84 ELVGRNVRIMKSIVPEVVKS-GFDGIFLVATNPVD----ILTYVAWK--------LSGFP 130
Query: 138 HNRAMGQ------------ISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATVTTSKGEK 185
NR +G ++E+L V V II G H ++ P + AT+ G
Sbjct: 131 KNRVIGSGTVLDTARLRYLLAEKLGVDPQSVHAYII-GEHGDSEVPVWSSATI----GGV 185
Query: 186 PVREAVADDNWLNTEFITT--------VQQRGAA--IIKARKLSSALSAASSACDHIRDW 235
P+ + +L + T + R AA II RK ++ + +
Sbjct: 186 PLLD------YLKAKGTETDLDLEEIEKEVRDAAYEIIN-RKGATYYGIGMAVARIVEAI 238
Query: 236 VLGTPKGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAE 295
+ + VS Y DG YGI + + P + + L + + + +AE
Sbjct: 239 LHDENRVLPVS--AYLDGEYGI-KDVYIGVPAVLGRNGVEEIIELPLSDEEKEAFQKSAE 295
Query: 296 EL 297
L
Sbjct: 296 TL 297
>gnl|CDD|178836 PRK00066, ldh, L-lactate dehydrogenase; Reviewed.
Length = 315
Score = 53.0 bits (128), Expect = 6e-08
Identities = 66/255 (25%), Positives = 111/255 (43%), Gaps = 24/255 (9%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
CKD ++ V+ G P+K G R D++ KN+ I+K+ + + LV +NP +
Sbjct: 69 SDCKDADLVVITAGAPQKPGETRLDLVEKNLKIFKSIVGEVMAS-GFDGIFLVASNPVDI 127
Query: 114 NALILKEFAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDV 173
+ + + I T LD R +SE+L V V II G H T++P
Sbjct: 128 LTYATWKLSGFPKERVIGSGTSLDSARFRYMLSEKLDVDPRSVHAYII-GEHGDTEFPVW 186
Query: 174 NHATVTTSKGEKPVREAVADDNWLNTEFITTVQQ--RGAA--IIKARKLSS-----ALSA 224
+HA V P+ E + ++ + E + + + R AA II+ + + AL+
Sbjct: 187 SHANV----AGVPLEEYLEENEQYDEEDLDEIFENVRDAAYEIIEKKGATYYGIAMALAR 242
Query: 225 ASSACDHIRDWVLGTPKGTWVSMGVYSDGSYGIPEGLIYSFPVTCEKGEWSIVKGLKVDE 284
+ A + + VL VS Y +G YG + I V G IV+ L +++
Sbjct: 243 ITKAILNNENAVLP------VS--AYLEGQYGEEDVYIGVPAVVNRNGIREIVE-LPLND 293
Query: 285 FSRAKMDATAEELAE 299
+ K +A+ L E
Sbjct: 294 DEKQKFAHSADVLKE 308
>gnl|CDD|173376 PTZ00082, PTZ00082, L-lactate dehydrogenase; Provisional.
Length = 321
Score = 51.2 bits (123), Expect = 2e-07
Identities = 35/129 (27%), Positives = 58/129 (44%), Gaps = 11/129 (8%)
Query: 57 KDVNIAVMVGGFPRKEGME-----RKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPA 111
++ ++ G ++ G R D++ N I A ++K+ PN V+V+ NP
Sbjct: 73 AGSDVVIVTAGLTKRPGKSDKEWNRDDLLPLNAKIMDEVAEGIKKYC-PNAFVIVITNPL 131
Query: 112 NTNALILKEFAPSIPAKNITC--LTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQ 169
+ +L+E +P KN C LD +R I+E+L V+ DV +I G H
Sbjct: 132 DVMVKLLQE-HSGLP-KNKVCGMAGVLDSSRLRTYIAEKLGVNPRDVHASVI-GAHGDKM 188
Query: 170 YPDVNHATV 178
P + TV
Sbjct: 189 VPLPRYVTV 197
>gnl|CDD|215058 PLN00106, PLN00106, malate dehydrogenase.
Length = 323
Score = 50.3 bits (121), Expect = 4e-07
Identities = 38/116 (32%), Positives = 61/116 (52%), Gaps = 7/116 (6%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
+A K ++ ++ G PRK GM R D+ + N I K A+ KH PN V +++NP N+
Sbjct: 82 DALKGADLVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEAVAKH-CPNALVNIISNPVNS 140
Query: 114 N----ALILKEFAPSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNH 165
A +LK+ A K + +T LD RA ++E+ + +DV +V + G H
Sbjct: 141 TVPIAAEVLKK-AGVYDPKKLFGVTTLDVVRANTFVAEKKGLDPADV-DVPVVGGH 194
>gnl|CDD|178212 PLN02602, PLN02602, lactate dehydrogenase.
Length = 350
Score = 48.6 bits (116), Expect = 2e-06
Identities = 35/154 (22%), Positives = 71/154 (46%), Gaps = 16/154 (10%)
Query: 18 MLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGMERK 77
MLD++ AA L K ++A+TD ++ ++ G + G R
Sbjct: 79 MLDLQHAAAFLPRTK-------------ILASTDY-AVTAGSDLCIVTAGARQIPGESRL 124
Query: 78 DVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPAKNITCLTRLD 137
+++ +NV++++ L K+ +P+ +L+V+NP + + + + + I T LD
Sbjct: 125 NLLQRNVALFRKIIPELAKY-SPDTILLIVSNPVDVLTYVAWKLSGFPANRVIGSGTNLD 183
Query: 138 HNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYP 171
+R I++ L V+ DV+ I+ G H +
Sbjct: 184 SSRFRFLIADHLDVNAQDVQAYIV-GEHGDSSVA 216
>gnl|CDD|240360 PTZ00325, PTZ00325, malate dehydrogenase; Provisional.
Length = 321
Score = 46.2 bits (110), Expect = 8e-06
Identities = 37/117 (31%), Positives = 58/117 (49%), Gaps = 7/117 (5%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
+A + ++ ++ G PRK GM R D+ + N I + +A+ AP V +V+NP N+
Sbjct: 72 KALRGADLVLICAGVPRKPGMTRDDLFNTNAPIVRDLVAAVASS-APKAIVGIVSNPVNS 130
Query: 114 NALILKEFAPSI----PAKNITCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHS 166
I E P K + +T LD RA ++E L ++ DV NV + G HS
Sbjct: 131 TVPIAAETLKKAGVYDPRK-LFGVTTLDVVRARKFVAEALGMNPYDV-NVPVVGGHS 185
>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 = 45.2 bits (108), Expect = 2e-05
Identities = 47/168 (27%), Positives = 73/168 (43%), Gaps = 19/168 (11%)
Query: 18 MLDIEPA---AEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGM 74
++DI A EA M+L P +K V CK ++ V+ G +K G
Sbjct: 30 LVDINKAKAEGEA-----MDLAHGT-PFVKPVRIYAGDYADCKGADVVVITAGANQKPGE 83
Query: 75 ERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSI----PAKNI 130
R D++ +NV+I+K + K+ AP+ +LVV NP + +L A + P + I
Sbjct: 84 TRLDLLKRNVAIFKEIIPQILKY-APDAILLVVTNPVD----VLTYVAYKLSGLPPNRVI 138
Query: 131 TCLTRLDHNRAMGQISERLKVHVSDVKNVIIWGNHSSTQYPDVNHATV 178
T LD R + E L V V II G H ++ + A +
Sbjct: 139 GSGTVLDTARFRYLLGEHLGVDPRSVHAYII-GEHGDSEVAVWSSANI 185
>gnl|CDD|235340 PRK05086, PRK05086, malate dehydrogenase; Provisional.
Length = 312
Score = 44.6 bits (106), Expect = 3e-05
Identities = 34/127 (26%), Positives = 55/127 (43%), Gaps = 11/127 (8%)
Query: 48 ATTDVVEACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAA--PNCKVL 105
+ D A + ++ ++ G RK GM+R D+ + N I K + +EK A P +
Sbjct: 59 SGEDPTPALEGADVVLISAGVARKPGMDRSDLFNVNAGIVK---NLVEKVAKTCPKACIG 115
Query: 106 VVANPANTNALILKEF---APSIPAKNITCLTRLDHNRAMGQISERLKVHVSDVK-NVII 161
++ NP NT I E A + +T LD R+ ++E +V+ VI
Sbjct: 116 IITNPVNTTVAIAAEVLKKAGVYDKNKLFGVTTLDVIRSETFVAELKGKQPGEVEVPVI- 174
Query: 162 WGNHSST 168
G HS
Sbjct: 175 -GGHSGV 180
>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 = 40.9 bits (97), Expect = 4e-04
Identities = 37/153 (24%), Positives = 66/153 (43%), Gaps = 30/153 (19%)
Query: 54 EACKDVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASALEKHAAPNCKVLVVANPANT 113
CKD +I V+ G P+K G R D++ KN I K+ + K + + LV +NP +
Sbjct: 64 SDCKDADIVVITAGAPQKPGETRLDLLEKNAKIMKSIVPKI-KASGFDGIFLVASNPVDV 122
Query: 114 NALILKEFAPSIPAKNITCLTRLDHNRAMGQ------------ISERLKVHVSDVKNVII 161
++++ L+ L NR +G ++E+L V V ++
Sbjct: 123 ITYVVQK------------LSGLPKNRVIGTGTSLDTARLRRALAEKLNVDPRSVHAYVL 170
Query: 162 WGNHSSTQYPDVNHATVTTSKGEKPVREAVADD 194
G H +Q+ + TV G KP+ + + +
Sbjct: 171 -GEHGDSQFVAWSTVTV----GGKPLLDLLKEG 198
>gnl|CDD|225990 COG3459, COG3459, Cellobiose phosphorylase [Carbohydrate transport
and metabolism].
Length = 1056
Score = 31.2 bits (71), Expect = 0.72
Identities = 25/108 (23%), Positives = 39/108 (36%), Gaps = 16/108 (14%)
Query: 200 EFITTVQQRGAAIIKARKLSSALSAASSACDHIRDWVLGTPKGTWVSMGVYSDGSY-GIP 258
F + RG +A + + A A + W G W G DG+ G P
Sbjct: 769 TFKELAKARGD-EARADTWAKHVEALREALE-TNGWD-----GEWYRRGYGDDGTPLGSP 821
Query: 259 ---EGLIYSFPVTCEKGEWSIVKGLKVDEFSRAKMDATAEELAEEKTL 303
E I S P + WS++ G E + MD+ + L + +
Sbjct: 822 EDEECQIDSIPQS-----WSVLSGEGDKERAEKAMDSVMKYLVDPDGV 864
>gnl|CDD|216827 pfam01983, CofC, Guanylyl transferase CofC like. Coenzyme F420 is
a hydride carrier cofactor that functions during
methanogenesis. This family of proteins represents CofC,
a nucleotidyl transferase that is involved in coenzyme
F420 biosynthesis. CofC has been shown to catalyze the
formation of lactyl-2-diphospho-5'-guanosine from
2-phospho-L-lactate and GTP.
Length = 217
Score = 30.2 bits (68), Expect = 0.95
Identities = 26/144 (18%), Positives = 47/144 (32%), Gaps = 18/144 (12%)
Query: 18 MLDIEPAAEALNGVKMELIDAAFPLLKGVVATTDVVEACKDVNIAVMVGGFPRKEGMERK 77
+LD+ A + ++ + + P V+ VVE D+N AV +
Sbjct: 34 LLDVIDALKPVDVLVFSEDEVVLPSALDVLGVEVVVETESDLNTAV-------NQAFMAP 86
Query: 78 D------VMSKNVSIYKAQASALEKHAAPNCKVLVVANPANTNALILKEFAPSIPAKNIT 131
+ + S I K + V+ TN L+L++ + +
Sbjct: 87 EEAPVIIIPSDIPLISKEVLKRFLETEGRADVVIAPGRGGGTNMLLLRKRGFRVSYHFGS 146
Query: 132 CLTRLDHNRAMGQISERLKVHVSD 155
L+ R G LK + D
Sbjct: 147 FFKHLEEARKRG-----LKAKIYD 165
>gnl|CDD|223513 COG0436, COG0436, Aspartate/tyrosine/aromatic aminotransferase
[Amino acid transport and metabolism].
Length = 393
Score = 29.9 bits (68), Expect = 1.6
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 87 YKAQASALEKHAAPNCKVLVVANPAN-TNALILKEF 121
+K LE P K +++ +P N T A+ KE
Sbjct: 149 FKPDLEDLEAAITPKTKAIILNSPNNPTGAVYSKEE 184
>gnl|CDD|224403 COG1486, CelF, Alpha-galactosidases/6-phospho-beta-glucosidases,
family 4 of glycosyl hydrolases [Carbohydrate transport
and metabolism].
Length = 442
Score = 29.9 bits (68), Expect = 2.0
Identities = 31/134 (23%), Positives = 50/134 (37%), Gaps = 29/134 (21%)
Query: 16 LHMLDIEPAAEALNGVKME-LIDAAFPLLKGVVATTDVVEACKDVNI---AVMVGGFPRK 71
L + DI+ + + + L++ A +K V ATTD EA + + + VGG +
Sbjct: 35 LALYDIDEERLKIIAILAKKLVEEAGAPVK-VEATTDRREALEGADFVITQIRVGGLEAR 93
Query: 72 EGMERKDVMSKNVSIYKAQ--------------------ASALEKHAAPNCKVLVVANPA 111
E ER + +Y + A +EK PN +L NPA
Sbjct: 94 EKDER---IPLKHGLYGQETNGPGGIFYGLRTIPVILDIAKDMEKVC-PNAWMLNYTNPA 149
Query: 112 NTNALILKEFAPSI 125
++ P I
Sbjct: 150 AIVTEAVRRLYPKI 163
>gnl|CDD|217628 pfam03587, EMG1, EMG1/NEP1 methyltransferase. Members of this
family are essential for 40S ribosomal biogenesis. The
structure of EMG1 has revealed that it is a novel member
of the superfamily of alpha/beta knot fold
methyltransferases.
Length = 200
Score = 29.1 bits (66), Expect = 2.2
Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 46 VVATTDVVEACKDVNIAVMVGGFPR---KEGMERKDVMSKNVSIYKAQASA 93
V+ ++V + +A ++G FP + ++ K ++ SI SA
Sbjct: 139 KVSPKELVSELLNKPVAFVIGAFPHGDFSDEVDYKKA-DESYSISNYPLSA 188
>gnl|CDD|234190 TIGR03376, glycerol3P_DH, glycerol-3-phosphate dehydrogenase
(NAD(+)). Members of this protein family are the
eukaryotic enzyme, glycerol-3-phosphate dehydrogenase
(NAD(+)) (EC 1.1.1.8). Enzymatic activity for 1.1.1.8
is defined as sn-glycerol 3-phosphate + NAD(+) =
glycerone phosphate + NADH. Note the very similar
reactions of enzymes defined as EC 1.1.1.94 and
1.1.99.5, assigned to families of proteins in the
bacteria.
Length = 342
Score = 28.8 bits (65), Expect = 3.2
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 41 PLLKGVVATTDVVEACKDVNIAVMV 65
L +VA D+VEA K +I V V
Sbjct: 65 KLPANLVAVPDLVEAAKGADILVFV 89
>gnl|CDD|236612 PRK09685, PRK09685, DNA-binding transcriptional activator FeaR;
Provisional.
Length = 302
Score = 28.1 bits (63), Expect = 5.3
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 126 PAKNITCLTRLDHNRAMGQISERL 149
P + C RL + M Q+S RL
Sbjct: 132 PGQKPACAGRLSASLPMVQLSHRL 155
>gnl|CDD|237972 PRK15483, PRK15483, type III restriction-modification system StyLTI
enzyme res; Provisional.
Length = 986
Score = 28.5 bits (64), Expect = 5.8
Identities = 4/38 (10%), Positives = 13/38 (34%)
Query: 168 TQYPDVNHATVTTSKGEKPVREAVADDNWLNTEFITTV 205
Q P + ++ V + + +E++ +
Sbjct: 718 RQIPTQVQQRLVSNDDNGRVEVSQREGELAASEYLNGM 755
>gnl|CDD|224670 COG1756, Mra1, Uncharacterized conserved protein [Function
unknown].
Length = 223
Score = 27.7 bits (62), Expect = 6.0
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 58 DVNIAVMVGGFPRKEGMERKDVMSKNVSIYKAQASA 93
IAV++GGFP + E + +++ SIY SA
Sbjct: 170 LKGIAVIIGGFPHGDFREETEFVAEKYSIYDEPLSA 205
>gnl|CDD|235596 PRK05764, PRK05764, aspartate aminotransferase; Provisional.
Length = 393
Score = 28.2 bits (64), Expect = 6.7
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 87 YKAQASALEKHAAPNCKVLVVANPAN-TNALILKE 120
+K LE P K L++ +P+N T A+ E
Sbjct: 150 FKLTVEQLEAAITPKTKALILNSPSNPTGAVYSPE 184
>gnl|CDD|240639 cd12162, 2-Hacid_dh_4, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 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
yydrolase. 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 = 307
Score = 27.8 bits (63), Expect = 7.6
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 34 ELIDAAFPLLK--GVVAT-TDVV--EACKDVNIAV 63
E++ P LK GV+AT + V A K+ I V
Sbjct: 58 EVLAQL-PNLKLIGVLATGYNNVDLAAAKERGITV 91
>gnl|CDD|218112 pfam04497, Pox_E2-like, Poxviridae protein. This family of
proteins is restricted to Poxviridae. It contains a
number of differently named uncharacterized proteins.
Length = 727
Score = 28.1 bits (63), Expect = 7.9
Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 1/53 (1%)
Query: 181 SKGEKPVREAVADDNWLNTEFITTVQQRGAAI-IKARKLSSALSAASSACDHI 232
KG P+ + + W N E I K +KL S + +
Sbjct: 381 KKGADPLTDYLFSTFWFNPELIRLFLLSYGFCKTKMKKLLFEYPLTSESTTRL 433
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
0.316 0.131 0.382
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: 15,361,394
Number of extensions: 1431020
Number of successful extensions: 1376
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1317
Number of HSP's successfully gapped: 54
Length of query: 309
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 212
Effective length of database: 6,635,264
Effective search space: 1406675968
Effective search space used: 1406675968
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.4 bits)