RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 019047
(347 letters)
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 375 bits (963), Expect = e-130
Identities = 168/262 (64%), Positives = 214/262 (81%), Gaps = 10/262 (3%)
Query: 94 IAEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDIT 153
IA+DVT+LIG+TP+VYLN V +GCV +AAKLE MEPC SVKDRIGYSMITDAEE G I
Sbjct: 5 IAKDVTELIGKTPLVYLNNVVDGCVARIAAKLEMMEPCSSVKDRIGYSMITDAEEKGLIK 64
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKG 213
PG++VL+EPT+GNTG+G+AF+AA KGYKLI+TMPAS +LERRI+L AFGAE++LTDP KG
Sbjct: 65 PGESVLIEPTSGNTGIGLAFMAAAKGYKLIITMPASMSLERRIILLAFGAELVLTDPAKG 124
Query: 214 LRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGG 273
++GA+ KAEEI+ TPN+Y+ QQF+N AN KIH+++TGPEIW+ T G VD FV+ IGTGG
Sbjct: 125 MKGAVQKAEEILAKTPNSYILQQFENPANPKIHYETTGPEIWKGTGGKVDAFVSGIGTGG 184
Query: 274 TITGTGRFLKMMNKEIKVVGVEPAERSVISGEN----------AGYVPSILDVQLLDEVI 323
TITG G++LK N +IK+ GVEP E +V+SG AG++P +LDV LLDEV+
Sbjct: 185 TITGAGKYLKEQNPDIKLYGVEPVESAVLSGGKPGPHKIQGIGAGFIPGVLDVDLLDEVV 244
Query: 324 KVTNDEAVNMARRLALEEGLLV 345
+V++DEA+ A+ LAL+EGLLV
Sbjct: 245 QVSSDEAIETAKLLALKEGLLV 266
>gnl|CDD|233286 TIGR01136, cysKM, cysteine synthase. This model discriminates
cysteine synthases (EC 2.5.1.47) (both CysK and CysM)
from cystathionine beta-synthase, a protein found
primarily in eukaryotes and carrying a C-terminal CBS
domain lacking from this protein. Bacterial proteins
lacking the CBS domain but otherwise showing
resemblamnce to cystathionine beta-synthases and
considerable phylogenetic distance from known cysteine
synthases were excluded from the seed and score below
the trusted cutoff [Amino acid biosynthesis, Serine
family].
Length = 299
Score = 355 bits (914), Expect = e-123
Identities = 142/258 (55%), Positives = 183/258 (70%), Gaps = 11/258 (4%)
Query: 98 VTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKT 157
+ +LIG TP+V LN++ GC V AKLE P SVKDRI SMI DAE+ G + PG T
Sbjct: 1 IEELIGNTPLVRLNRLAPGCDARVLAKLEGRNPSGSVKDRIALSMIEDAEKRGLLKPGDT 60
Query: 158 VLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGA 217
++E T+GNTG+ +A VAA KGYKLI+TMP + +LERR LLRA+GAE+ILT E+G++GA
Sbjct: 61 -IIEATSGNTGIALAMVAAAKGYKLILTMPETMSLERRKLLRAYGAELILTPAEEGMKGA 119
Query: 218 LDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITG 277
+DKAEE+ T M QF+N AN + H+ +TGPEIW DT G +D FVA +GTGGTITG
Sbjct: 120 IDKAEELAAETNKYVMLDQFENPANPEAHYKTTGPEIWRDTDGRIDHFVAGVGTGGTITG 179
Query: 278 TGRFLKMMNKEIKVVGVEPAERSVISGEN----------AGYVPSILDVQLLDEVIKVTN 327
GR+LK N IK+V VEPAE V+SG AG++P ILD+ L+DEVI V++
Sbjct: 180 VGRYLKEQNPNIKIVAVEPAESPVLSGGEPGPHKIQGIGAGFIPKILDLSLIDEVITVSD 239
Query: 328 DEAVNMARRLALEEGLLV 345
++A+ ARRLA EEG+LV
Sbjct: 240 EDAIETARRLAREEGILV 257
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 353 bits (907), Expect = e-121
Identities = 156/306 (50%), Positives = 218/306 (71%), Gaps = 14/306 (4%)
Query: 50 RRRILPIVASAKAGAAASSSSSSLYATSTREIEKEEGNDFHGVNIAEDVTQLIGRTPMVY 109
+RR +S S+ S +A R++ K D G I D +QLIG+TP+VY
Sbjct: 9 KRRSSIPPSSHTLRKLFSTVGSPSFAQRLRDLPK----DLPGTKIKTDASQLIGKTPLVY 64
Query: 110 LNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPTTGNTGL 169
LNKVTEGC +AAK E +P S+KDR +MI DAE+ ITPGKT L+EPT+GN G+
Sbjct: 65 LNKVTEGCGAYIAAKQEMFQPTSSIKDRPALAMIEDAEKKNLITPGKTTLIEPTSGNMGI 124
Query: 170 GIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDKAEEIVLNTP 229
+AF+AA+KGYK+I+TMP+ T+LERR+ +RAFGAE++LTDP KG+ G + KA E++ +TP
Sbjct: 125 SLAFMAAMKGYKMILTMPSYTSLERRVTMRAFGAELVLTDPTKGMGGTVKKAYELLESTP 184
Query: 230 NAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGRFLKMMNKEI 289
+A+M QQF N AN ++HF++TGPEIWEDTLG VDIFV IG+GGT++G G++LK N +
Sbjct: 185 DAFMLQQFSNPANTQVHFETTGPEIWEDTLGQVDIFVMGIGSGGTVSGVGKYLKSKNPNV 244
Query: 290 KVVGVEPAERSV----------ISGENAGYVPSILDVQLLDEVIKVTNDEAVNMARRLAL 339
K+ GVEPAE +V I+G G+ P ILD+ ++++V++V++++AVNMAR LAL
Sbjct: 245 KIYGVEPAESNVLNGGKPGPHHITGNGVGFKPDILDMDVMEKVLEVSSEDAVNMARELAL 304
Query: 340 EEGLLV 345
+EGL+V
Sbjct: 305 KEGLMV 310
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 348 bits (894), Expect = e-118
Identities = 182/328 (55%), Positives = 245/328 (74%), Gaps = 25/328 (7%)
Query: 41 SSINGALATRRRILPIVASAKAGAAASSS------SSSLYATSTRE-------IEKEEGN 87
SS + + R R P ++S +A+ S S S S R+ +++E G
Sbjct: 49 SSSSSSTLRRFRCSPEISSLSFSSASDFSLAMKRQSRSFADGSERDPSVVCEAVKRETGP 108
Query: 88 DFHGVNIAEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAE 147
D G+NIA++V+QLIG+TPMVYLN + +GCV N+AAKLE MEPC SVKDRIGYSM+TDAE
Sbjct: 109 D--GLNIADNVSQLIGKTPMVYLNSIAKGCVANIAAKLEIMEPCCSVKDRIGYSMVTDAE 166
Query: 148 ESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIIL 207
+ G I+PGK+VLVEPT+GNTG+G+AF+AA +GY+LI+TMPAS ++ERR+LL+AFGAE++L
Sbjct: 167 QKGFISPGKSVLVEPTSGNTGIGLAFIAASRGYRLILTMPASMSMERRVLLKAFGAELVL 226
Query: 208 TDPEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVA 267
TDP KG+ GA+ KAEEI+ NTP+AYM QQFDN AN KIH+++TGPEIW+DT G VDIFVA
Sbjct: 227 TDPAKGMTGAVQKAEEILKNTPDAYMLQQFDNPANPKIHYETTGPEIWDDTKGKVDIFVA 286
Query: 268 AIGTGGTITGTGRFLKMMNKEIKVVGVEPAERSVISGEN----------AGYVPSILDVQ 317
IGTGGTITG GRF+K N + +V+GVEP E ++SG AG++P LD +
Sbjct: 287 GIGTGGTITGVGRFIKEKNPKTQVIGVEPTESDILSGGKPGPHKIQGIGAGFIPKNLDQK 346
Query: 318 LLDEVIKVTNDEAVNMARRLALEEGLLV 345
++DEVI ++++EA+ A++LAL+EGL+V
Sbjct: 347 IMDEVIAISSEEAIETAKQLALKEGLMV 374
>gnl|CDD|233288 TIGR01139, cysK, cysteine synthase A. This model distinguishes
cysteine synthase A (CysK) from cysteine synthase B
(CysM). CysM differs in having a broader specificity
that also allows the use of thiosulfate to produce
cysteine thiosulfonate [Amino acid biosynthesis, Serine
family].
Length = 298
Score = 342 bits (878), Expect = e-118
Identities = 141/259 (54%), Positives = 186/259 (71%), Gaps = 13/259 (5%)
Query: 98 VTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKT 157
+++LIG TP+V LN++ EGC NV KLE P SVKDRI +MI DAE+ G + PGKT
Sbjct: 1 ISELIGNTPLVRLNRI-EGCNANVFVKLEGRNPSGSVKDRIALNMIWDAEKRGLLKPGKT 59
Query: 158 VLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGA 217
+VEPT+GNTG+ +A VAA +GYKLI+TMP + ++ERR LL+A+GAE++LT +G++GA
Sbjct: 60 -IVEPTSGNTGIALAMVAAARGYKLILTMPETMSIERRKLLKAYGAELVLTPGAEGMKGA 118
Query: 218 LDKAEEIVLNTPNAY-MFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTIT 276
+ KAEEI +TPN+Y M QQF+N AN +IH +TGPEIW DT G +D FVA +GTGGTIT
Sbjct: 119 IAKAEEIAASTPNSYFMLQQFENPANPEIHRKTTGPEIWRDTDGKLDAFVAGVGTGGTIT 178
Query: 277 GTGRFLKMMNKEIKVVGVEPAERSVISGEN----------AGYVPSILDVQLLDEVIKVT 326
G G LK IK+V VEPAE V+SG AG++P L+ ++DEVI V+
Sbjct: 179 GVGEVLKEQKPNIKIVAVEPAESPVLSGGKPGPHKIQGIGAGFIPKNLNRSVIDEVITVS 238
Query: 327 NDEAVNMARRLALEEGLLV 345
++EA+ ARRLA EEG+LV
Sbjct: 239 DEEAIETARRLAAEEGILV 257
>gnl|CDD|107204 cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine
beta-synthase (CBS) and Cysteine synthase. CBS is a
unique heme-containing enzyme that catalyzes a pyridoxal
5'-phosphate (PLP)-dependent condensation of serine and
homocysteine to give cystathionine. Deficiency of CBS
leads to homocystinuria, an inherited disease of sulfur
metabolism characterized by increased levels of the
toxic metabolite homocysteine. Cysteine synthase on the
other hand catalyzes the last step of cysteine
biosynthesis. This subgroup also includes an
O-Phosphoserine sulfhydrylase found in hyperthermophilic
archaea which produces L-cysteine from sulfide and the
more thermostable O-phospho-L-serine.
Length = 291
Score = 327 bits (840), Expect = e-112
Identities = 127/255 (49%), Positives = 171/255 (67%), Gaps = 13/255 (5%)
Query: 103 GRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEP 162
G TP+V LN+++ G + AKLE P SVKDRI MI DAE+ G + PG T+ +EP
Sbjct: 1 GNTPLVRLNRLSPGTGAEIYAKLEFFNPGGSVKDRIALYMIEDAEKRGLLKPGTTI-IEP 59
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEK--GLRGALDK 220
T+GNTG+G+A VAA KGY+ I+ MP + + E+R LLRA GAE+ILT + G++GA+ K
Sbjct: 60 TSGNTGIGLAMVAAAKGYRFIIVMPETMSEEKRKLLRALGAEVILTPEAEADGMKGAIAK 119
Query: 221 AEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGR 280
A E+ TPNA+ QF+N AN + H+++T PEIWE G VD FVA +GTGGTITG R
Sbjct: 120 ARELAAETPNAFWLNQFENPANPEAHYETTAPEIWEQLDGKVDAFVAGVGTGGTITGVAR 179
Query: 281 FLKMMNKEIKVVGVEPAERSVISGEN----------AGYVPSILDVQLLDEVIKVTNDEA 330
+LK N +++VGV+P + SG AG++P LD L+DEV++V+++EA
Sbjct: 180 YLKEKNPNVRIVGVDPVGSVLFSGGPPGPHKIEGIGAGFIPENLDRSLIDEVVRVSDEEA 239
Query: 331 VNMARRLALEEGLLV 345
MARRLA EEGLLV
Sbjct: 240 FAMARRLAREEGLLV 254
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 328 bits (841), Expect = e-112
Identities = 151/262 (57%), Positives = 194/262 (74%), Gaps = 10/262 (3%)
Query: 94 IAEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDIT 153
I DVT+LIG TPMVYLN + +GCV +AAKLE MEPC SVKDRI YSMI DAE+ G IT
Sbjct: 7 IKNDVTELIGNTPMVYLNNIVDGCVARIAAKLEMMEPCSSVKDRIAYSMIKDAEDKGLIT 66
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKG 213
PGK+ L+E T GNTG+G+A + A +GYK+I+ MP++ +LERRI+LRA GAE+ LTD G
Sbjct: 67 PGKSTLIEATAGNTGIGLACIGAARGYKVILVMPSTMSLERRIILRALGAEVHLTDQSIG 126
Query: 214 LRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGG 273
L+G L+KAEEI+ TP Y+ QQF+N AN +IH+ +TGPEIW D+ G VDI VA +GTGG
Sbjct: 127 LKGMLEKAEEILSKTPGGYIPQQFENPANPEIHYRTTGPEIWRDSAGKVDILVAGVGTGG 186
Query: 274 TITGTGRFLKMMNKEIKVVGVEPAERSVISGEN----------AGYVPSILDVQLLDEVI 323
T TG G+FLK NK+IKV VEP E +V+SG +G +P LD+ ++DE+I
Sbjct: 187 TATGVGKFLKEKNKDIKVCVVEPVESAVLSGGQPGPHLIQGIGSGIIPFNLDLTIVDEII 246
Query: 324 KVTNDEAVNMARRLALEEGLLV 345
+VT +EA+ A+ LAL+EGLLV
Sbjct: 247 QVTGEEAIETAKLLALKEGLLV 268
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 324 bits (832), Expect = e-110
Identities = 131/263 (49%), Positives = 177/263 (67%), Gaps = 12/263 (4%)
Query: 94 IAEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDIT 153
I E + LIG TP+V LN+++ G + AKLES P SVKDRI MI DAE+ G +
Sbjct: 1 IYESILDLIGNTPLVRLNRLSPGTGVEIYAKLESFNPGGSVKDRIALYMIEDAEKRGLLK 60
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKG 213
PG T+ VE T+GNTG+ +A VAA KGY+LI+ MP + + ERR LLRA GAE+ILT G
Sbjct: 61 PGGTI-VEATSGNTGIALAMVAAAKGYRLIIVMPETMSQERRKLLRALGAEVILTPGAPG 119
Query: 214 -LRGALDKAEEIVLNTPN-AYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGT 271
++GA+++A+E+ P A QF+N AN + H+++TGPEIW+ T G VD FVA +GT
Sbjct: 120 NMKGAIERAKELAAEIPGYAVWLNQFENPANPEAHYETTGPEIWQQTDGKVDAFVAGVGT 179
Query: 272 GGTITGTGRFLKMMNKEIKVVGVEPAERSVISGEN---------AGYVPSILDVQLLDEV 322
GGTITG R+LK N +++V V+P ++SG AG+VP LD+ L+DEV
Sbjct: 180 GGTITGVARYLKERNPNVRIVAVDPEGSVLLSGGEGPHKIEGIGAGFVPENLDLDLIDEV 239
Query: 323 IKVTNDEAVNMARRLALEEGLLV 345
I+V+++EA+ ARRLA EEGLLV
Sbjct: 240 IRVSDEEAIATARRLAREEGLLV 262
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 262 bits (672), Expect = 4e-86
Identities = 113/276 (40%), Positives = 167/276 (60%), Gaps = 24/276 (8%)
Query: 93 NIAEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDI 152
I EDV+ IG TP++ LN+ +E + K E + P SVKDR ++I DAE+ G +
Sbjct: 2 KIFEDVSDTIGNTPLIRLNRASEATGCEILGKAEFLNPGGSVKDRAALNIIWDAEKRGLL 61
Query: 153 TPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILT---- 208
PG T+ VE T GNTG+G+A VAA +GYK ++ MP + + E++ LLRA GAE++L
Sbjct: 62 KPGGTI-VEGTAGNTGIGLALVAAARGYKTVIVMPETQSQEKKDLLRALGAELVLVPAAP 120
Query: 209 --DPEKGLRGALDKAEEIVLNTPNAYMF-QQFDNMANLKIHFDSTGPEIWEDTLGCVDIF 265
+P ++GA AEE+V + PN ++ QFDN AN + H+++TGPEIWE T G VD F
Sbjct: 121 YANPNNYVKGAGRLAEELVASEPNGAIWANQFDNPANREAHYETTGPEIWEQTDGKVDGF 180
Query: 266 VAAIGTGGTITGTGRFLKMMNKEIKVVGVEP---------------AE-RSVISGENAGY 309
V A+GTGGT+ G R+LK N ++K+V +P AE S+ G G
Sbjct: 181 VCAVGTGGTLAGVSRYLKETNPKVKIVLADPTGSALYSYYKTGELKAEGSSITEGIGQGR 240
Query: 310 VPSILDVQLLDEVIKVTNDEAVNMARRLALEEGLLV 345
+ + L+ +D+ I++ ++EA++ A RL EEGL +
Sbjct: 241 ITANLEGAPIDDAIRIPDEEALSTAYRLLEEEGLCL 276
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 259 bits (663), Expect = 3e-85
Identities = 106/247 (42%), Positives = 149/247 (60%), Gaps = 5/247 (2%)
Query: 100 QLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVL 159
IG TP+V L ++ + AKLE P SVKDR SMI AE+ G+I PG T L
Sbjct: 8 DTIGNTPLVKLQRLPPDRGNTILAKLEGNNPAGSVKDRPALSMIVQAEKRGEIKPGDT-L 66
Query: 160 VEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALD 219
+E T+GNTG+ +A +AA+KGY++ + MP + + ERR +RA+GAE+IL E+G+ GA D
Sbjct: 67 IEATSGNTGIALAMIAAIKGYRMKLIMPENMSQERRAAMRAYGAELILVPKEQGMEGARD 126
Query: 220 KAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTG 279
A ++ + QF N N H+++TGPEIW T G + FV+++GT GTI G
Sbjct: 127 LALQMQAEG-EGKVLDQFANPDNPLAHYETTGPEIWRQTEGRITHFVSSMGTTGTIMGVS 185
Query: 280 RFLKMMNKEIKVVGVEPAERSVISGEN---AGYVPSILDVQLLDEVIKVTNDEAVNMARR 336
R+LK N +++VG++P E S I G Y+P I D +D V+ V+ EA N RR
Sbjct: 186 RYLKEQNPAVQIVGLQPEEGSSIPGIRRWPEEYLPKIFDASRVDRVLDVSQQEAENTMRR 245
Query: 337 LALEEGL 343
LA EEG+
Sbjct: 246 LAREEGI 252
>gnl|CDD|233287 TIGR01137, cysta_beta, cystathionine beta-synthase. Members of
this family closely resemble cysteine synthase but
contain an additional C-terminal CBS domain. The
function of any bacterial member included in this family
is proposed but not proven [Amino acid biosynthesis,
Serine family].
Length = 454
Score = 246 bits (629), Expect = 4e-78
Identities = 119/275 (43%), Positives = 167/275 (60%), Gaps = 29/275 (10%)
Query: 94 IAEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDIT 153
I +++ LIG TP+V LNKV++G + AK E P SVKDRI MI DAE SG +
Sbjct: 1 IRDNIIDLIGNTPLVRLNKVSKGIKCELLAKCEFFNPGGSVKDRIALRMIEDAEASGRLK 60
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILT----- 208
PG T ++EPT+GNTG+G+A VAA+KGYK I+ +P + E+ +L+A GAEI+ T
Sbjct: 61 PGDT-IIEPTSGNTGIGLALVAAIKGYKCIIVLPEKMSNEKVDVLKALGAEIVRTPTAAA 119
Query: 209 --DPEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFV 266
PE + A+ +V P A++ Q++N +N H+D TGPEI E G +D+FV
Sbjct: 120 FDSPES----HIGVAKRLVREIPGAHILDQYNNPSNPLAHYDGTGPEILEQCEGKLDMFV 175
Query: 267 AAIGTGGTITGTGRFLKMMNKEIKVVGVEPAERSVISG--------------ENAGY--V 310
A GTGGTITG R+LK N + ++VG +P E S+++ E GY +
Sbjct: 176 AGAGTGGTITGIARYLKESNPKCRIVGADP-EGSILAQPENLNKTGRTPYKVEGIGYDFI 234
Query: 311 PSILDVQLLDEVIKVTNDEAVNMARRLALEEGLLV 345
P++LD +++DE IK + E+ MARRL EEGLLV
Sbjct: 235 PTVLDRKVVDEWIKTDDKESFKMARRLIKEEGLLV 269
>gnl|CDD|130208 TIGR01138, cysM, cysteine synthase B. CysM differs from CysK in
that it can also use thiosulfate instead of sulfide, to
produce cysteine thiosulfonate instead of cysteine.
Alternate name: O-acetylserine (thiol)-lyase [Amino acid
biosynthesis, Serine family].
Length = 290
Score = 239 bits (610), Expect = 2e-77
Identities = 105/251 (41%), Positives = 151/251 (60%), Gaps = 5/251 (1%)
Query: 98 VTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKT 157
+ Q +G TP+V L ++ V KLE P SVKDR SMI +AE+ G+I PG
Sbjct: 2 IEQTVGNTPLVRLQRMGPENGSEVWLKLEGNNPAGSVKDRPALSMIVEAEKRGEIKPGD- 60
Query: 158 VLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGA 217
VL+E T+GNTG+ +A +AA+KGY++ + MP + + ER+ +RA+GAE+IL E+G+ GA
Sbjct: 61 VLIEATSGNTGIALAMIAALKGYRMKLLMPDNMSQERKAAMRAYGAELILVTKEEGMEGA 120
Query: 218 LDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITG 277
D A E+ + QF+N N H+ STGPEIW+ T G + FV+++GT GTI G
Sbjct: 121 RDLALELANRGEGKLL-DQFNNPDNPYAHYTSTGPEIWQQTGGRITHFVSSMGTTGTIMG 179
Query: 278 TGRFLKMMNKEIKVVGVEPAERSVISGEN---AGYVPSILDVQLLDEVIKVTNDEAVNMA 334
RFLK N +++VG++P E S I G Y+P I D L+D V+ + +A N
Sbjct: 180 VSRFLKEQNPPVQIVGLQPEEGSSIPGIRRWPTEYLPGIFDASLVDRVLDIHQRDAENTM 239
Query: 335 RRLALEEGLLV 345
R LA+ EG+
Sbjct: 240 RELAVREGIFC 250
>gnl|CDD|107202 cd00640, Trp-synth-beta_II, Tryptophan synthase beta superfamily
(fold type II); this family of pyridoxal phosphate
(PLP)-dependent enzymes catalyzes beta-replacement and
beta-elimination reactions. This CD corresponds to
aminocyclopropane-1-carboxylate deaminase (ACCD),
tryptophan synthase beta chain (Trp-synth_B),
cystathionine beta-synthase (CBS), O-acetylserine
sulfhydrylase (CS), serine dehydratase (Ser-dehyd),
threonine dehydratase (Thr-dehyd), diaminopropionate
ammonia lyase (DAL), and threonine synthase (Thr-synth).
ACCD catalyzes the conversion of
1-aminocyclopropane-1-carboxylate to alpha-ketobutyrate
and ammonia. Tryptophan synthase folds into a tetramer,
where the beta chain is the catalytic PLP-binding
subunit and catalyzes the formation of L-tryptophan from
indole and L-serine. CBS is a tetrameric hemeprotein
that catalyzes condensation of serine and homocysteine
to cystathionine. CS is a homodimer that catalyzes the
formation of L-cysteine from O-acetyl-L-serine.
Ser-dehyd catalyzes the conversion of L- or D-serine to
pyruvate and ammonia. Thr-dehyd is active as a homodimer
and catalyzes the conversion of L-threonine to
2-oxobutanoate and ammonia. DAL is also a homodimer and
catalyzes the alpha, beta-elimination reaction of both
L- and D-alpha, beta-diaminopropionate to form pyruvate
and ammonia. Thr-synth catalyzes the formation of
threonine and inorganic phosphate from
O-phosphohomoserine.
Length = 244
Score = 212 bits (543), Expect = 8e-68
Identities = 86/242 (35%), Positives = 121/242 (50%), Gaps = 30/242 (12%)
Query: 105 TPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPTT 164
TP+V L ++++ N+ KLE + P S KDR ++I AEE G + K V++E T
Sbjct: 1 TPLVRLKRLSKLGGANIYLKLEFLNPTGSFKDRGALNLILLAEEEGKL--PKGVIIESTG 58
Query: 165 GNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDKAEEI 224
GNTG+ +A AA G K + MP + E+ +RA GAE++L A+ A+E+
Sbjct: 59 GNTGIALAAAAARLGLKCTIVMPEGASPEKVAQMRALGAEVVLVPG--DFDDAIALAKEL 116
Query: 225 VLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGC-VDIFVAAIGTGGTITGTGRFLK 283
P AY QFDN AN+ + G EI E G D V +G GG I G R LK
Sbjct: 117 AEEDPGAYYVNQFDNPANIAGQG-TIGLEILEQLGGQKPDAVVVPVGGGGNIAGIARALK 175
Query: 284 MMNKEIKVVGVEPAERSVISGENAGYVPSILDVQLLDEVIKVTNDEAVNMARRLALEEGL 343
+ +KV+GVEP EV+ V+++EA+ R LA EEG+
Sbjct: 176 ELLPNVKVIGVEP------------------------EVVTVSDEEALEAIRLLAREEGI 211
Query: 344 LV 345
LV
Sbjct: 212 LV 213
>gnl|CDD|234409 TIGR03945, PLP_SbnA_fam, 2,3-diaminopropionate biosynthesis protein
SbnA. Members of this family include SbnA, a protein of
the staphyloferrin B biosynthesis operon of
Staphylococcus aureus. SbnA and SbnB together appear to
synthesize 2,3-diaminopropionate, a precursor of certain
siderophores and other secondary metabolites. SbnA is a
pyridoxal phosphate-dependent enzyme [Cellular
processes, Biosynthesis of natural products].
Length = 304
Score = 187 bits (478), Expect = 2e-57
Identities = 87/263 (33%), Positives = 130/263 (49%), Gaps = 19/263 (7%)
Query: 98 VTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKT 157
+ LIG TP+V L ++ + AKLE P S+KDR ++ A + G ITPG T
Sbjct: 1 ILSLIGNTPLVKLERLFPDAPFRLFAKLEGFNPGGSIKDRPALYILEAAIKRGRITPG-T 59
Query: 158 VLVEPTTGNTGLGIAFVAAVKGYKLI-VTMPASTNLERRILLRAFGAEIILT---DPEKG 213
++E ++GN G+ +A + A KG + I V P + ++ LRA+GAE+ D G
Sbjct: 60 TIIESSSGNLGIALAMICAYKGLRFICVVDPNISPQNLKL-LRAYGAEVEKVTEPDETGG 118
Query: 214 LRGA-LDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTG 272
G + + E++ + P+AY Q+ N N + H+ TG EI +D + T
Sbjct: 119 YLGTRIARVRELLASIPDAYWPNQYANPDNPRAHYHGTGREIARA-FPPLDYLFVGVSTT 177
Query: 273 GTITGTGRFLKMMNKEIKVVGVEPAERSV----------ISGENAGYVPSILDVQLLDEV 322
GT+ G R L+ KV+ V+ A SV I G A VP +LD L+D+V
Sbjct: 178 GTLMGCSRRLRERGPNTKVIAVD-AVGSVIFGGPPGRRHIPGLGASVVPELLDESLIDDV 236
Query: 323 IKVTNDEAVNMARRLALEEGLLV 345
+ V + V RRLA EG+L
Sbjct: 237 VHVPEYDTVAGCRRLARREGILA 259
>gnl|CDD|215840 pfam00291, PALP, Pyridoxal-phosphate dependent enzyme. Members of
this family are all pyridoxal-phosphate dependent
enzymes. This family includes: serine dehydratase
EC:4.2.1.13 P20132, threonine dehydratase EC:4.2.1.16,
tryptophan synthase beta chain EC:4.2.1.20, threonine
synthase EC:4.2.99.2, cysteine synthase EC:4.2.99.8
P11096, cystathionine beta-synthase EC:4.2.1.22,
1-aminocyclopropane-1-carboxylate deaminase EC:4.1.99.4.
Length = 295
Score = 175 bits (445), Expect = 2e-52
Identities = 83/273 (30%), Positives = 126/273 (46%), Gaps = 34/273 (12%)
Query: 98 VTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKT 157
++ IG TP+V L G V KLES+ P S KDR ++ A E G
Sbjct: 1 ISLGIGPTPLVRLPSPLLGA--RVYLKLESLNPTGSFKDRGAAYLLLRALERG------A 52
Query: 158 VLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIIL---TDPEKGL 214
+VE ++GNTG +A AA G K+ + +P + + +L+RA GAE+IL
Sbjct: 53 TVVEASSGNTGRALAAAAARLGLKVTIVVPEGASPGKLLLMRALGAEVILVVSEGDYDDA 112
Query: 215 RGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDT-LGCVDIFVAAIGTGG 273
++A E++ Q++N N+ + + G EI E G D V +G GG
Sbjct: 113 LELAEEAAELLAAYDGPIPLGQYNNP-NVIAGYKTIGLEILEQLGQGDPDAVVVPVGGGG 171
Query: 274 TITGTGRFLKMMNKEIKVVGVEPA----------------ERSVISGENAGY-VPSILDV 316
G R LK + I+V+GVEP + + I+G G + L +
Sbjct: 172 LAAGIARGLKELGPGIRVIGVEPEGAPALARSLEAGRRVPKPTTIAGLGPGIPLDGELAL 231
Query: 317 QLLDE----VIKVTNDEAVNMARRLALEEGLLV 345
+L+DE V V+++EA+ R LA EG+LV
Sbjct: 232 ELIDEYVGDVYAVSDEEALEAIRLLARREGILV 264
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 115 bits (288), Expect = 7e-29
Identities = 76/236 (32%), Positives = 111/236 (47%), Gaps = 42/236 (17%)
Query: 102 IGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVE 161
IG TP++ +N ++E + K E + P SVKDR+ +I +A ESG + PG V+ E
Sbjct: 51 IGNTPLIRINSLSEATGCEILGKCEFLNPGGSVKDRVAVKIIEEALESGQLFPGG-VVTE 109
Query: 162 PTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDP----------- 210
+ G+T + +A VA G K V +P +E+ +L A GA + P
Sbjct: 110 GSAGSTAISLATVAPAYGCKCHVVIPDDVAIEKSQILEALGATVERVRPVSITHKDHYVN 169
Query: 211 ---EKGL--------RGALDKAEEIVLNTPNA-------------------YMFQQFDNM 240
+ L R + + I L N + QF+N+
Sbjct: 170 IARRRALEANELASKRRKGSETDGIHLEKTNGCISEEEKENSLFSSSCTGGFFADQFENL 229
Query: 241 ANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGRFLKMMNKEIKVVGVEP 296
AN + H++ TGPEIWE T G +D FVAA GTGGT+ G RFL+ N IK ++P
Sbjct: 230 ANFRAHYEGTGPEIWEQTQGNLDAFVAAAGTGGTLAGVSRFLQEKNPNIKCFLIDP 285
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 89.6 bits (223), Expect = 4e-20
Identities = 67/271 (24%), Positives = 108/271 (39%), Gaps = 42/271 (15%)
Query: 104 RTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPT 163
TP+ ++E + K E+++P S K R Y+ ++ E + G ++ +
Sbjct: 25 PTPLQRSPSLSERLGAEIYLKRENLQPVGSFKIRGAYNKLSSLSEEEERAAG---VIAAS 81
Query: 164 TGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDP--EKGLRGALDKA 221
GN G+A+ A G K + MP +T + R +GAE+IL + A + A
Sbjct: 82 AGNHAQGVAYAAKRLGIKATIVMPETTPKIKVDATRGYGAEVILHGDNFDDAYAAAEELA 141
Query: 222 EEIVLNTPNAYMFQQFDN---MANLKIHFDST-GPEIWEDTLGCVDIFVAAIGTGGTITG 277
EE FD+ +A T EI E D +G GG I+G
Sbjct: 142 EEE-----GLTFVPPFDDPDVIAG-----QGTIALEILEQLPDLPDAVFVPVGGGGLISG 191
Query: 278 TGRFLKMMNKEIKVVGVEPAE-----RSVISGE---NAGYVPSILD-------------- 315
LK ++ EIKV+GVEP S+ +G+ V +I D
Sbjct: 192 IATALKALSPEIKVIGVEPEGAPSMYASLKAGKIVVVLPDVGTIADGLAVKRPGDLTFEI 251
Query: 316 -VQLLDEVIKVTNDEAVNMARRLALEEGLLV 345
+L+D+++ V DE R L ++
Sbjct: 252 LRELVDDIVLVDEDEICAAMRDLFERTKIIA 282
>gnl|CDD|107205 cd01562, Thr-dehyd, Threonine dehydratase: The first step in amino
acid degradation is the removal of nitrogen. Although
the nitrogen atoms of most amino acids are transferred
to alpha-ketoglutarate before removal, the alpha-amino
group of threonine can be directly converted into NH4+.
The direct deamination is catalyzed by threonine
dehydratase, in which pyridoxal phosphate (PLP) is the
prosthetic group. Threonine dehydratase is widely
distributed in all three major phylogenetic divisions.
Length = 304
Score = 78.3 bits (194), Expect = 2e-16
Identities = 65/277 (23%), Positives = 112/277 (40%), Gaps = 57/277 (20%)
Query: 104 RTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMI---TDAEESGDITPGKTVLV 160
RTP++ ++E V K E+++ S K R Y+ + ++ E + + V
Sbjct: 17 RTPLLTSPTLSELLGAEVYLKCENLQKTGSFKIRGAYNKLLSLSEEERAKGV-------V 69
Query: 161 EPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDK 220
+ GN G+A+ A + G + MP + + RA+GAE++L + D+
Sbjct: 70 AASAGNHAQGVAYAAKLLGIPATIVMPETAPAAKVDATRAYGAEVVLYGED------FDE 123
Query: 221 AEEIVLNTPNAYMFQQFDNMANLKIH-FD---------STGPEIWEDTLGCVDIFVAAIG 270
AE + + + IH FD + G EI E + +D +G
Sbjct: 124 AEAKARE------LAEEEGLTF--IHPFDDPDVIAGQGTIGLEILEQ-VPDLDAVFVPVG 174
Query: 271 TGGTITGTGRFLKMMNKEIKVVGVEPAE-----RSVISGE--NAGYVPSILD-------- 315
GG I G +K ++ KV+GVEP +S+ +G+ V +I D
Sbjct: 175 GGGLIAGIATAVKALSPNTKVIGVEPEGAPAMAQSLAAGKPVTLPEVDTIADGLAVKRPG 234
Query: 316 -------VQLLDEVIKVTNDEAVNMARRLALEEGLLV 345
+L+D+V+ V+ DE L E L+
Sbjct: 235 ELTFEIIRKLVDDVVTVSEDEIAAAMLLLFEREKLVA 271
>gnl|CDD|130197 TIGR01127, ilvA_1Cterm, threonine ammonia-lyase, medium form. A
form of threonine dehydratase with two copies of the
C-terminal domain pfam00585 is described by TIGR01124.
This model describes a phylogenetically distinct form
with a single copy of pfam00585. This form branches with
the catabolic threonine dehydratase of E. coli; many
members are designated as catabolic for this reason.
However, the catabolic form lacks any pfam00585 domain.
Many members of this model are found in species with
other Ile biosynthetic enzymes [Amino acid biosynthesis,
Pyruvate family].
Length = 380
Score = 71.3 bits (175), Expect = 9e-14
Identities = 72/270 (26%), Positives = 116/270 (42%), Gaps = 46/270 (17%)
Query: 105 TPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPTT 164
TP++Y +++ V KLE+++ S K R + I + E + +V +
Sbjct: 1 TPLIYSTTLSDITGSEVYLKLENLQKTGSFKIRGALNKIANLSEDQR----QRGVVAASA 56
Query: 165 GNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIIL--TDPEKGLRGALDKAE 222
GN G+A+ A G K ++ MP S + +++GAE+IL D ++ A AE
Sbjct: 57 GNHAQGVAYAAKKFGIKAVIVMPESAPPSKVKATKSYGAEVILHGDDYDEAYAFATSLAE 116
Query: 223 EIVLNTPNAYMF-QQFDN---MANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGT 278
E +F FD+ MA + G EI ED + VD + +G GG I+G
Sbjct: 117 E------EGRVFVHPFDDEFVMAGQ----GTIGLEIMED-IPDVDTVIVPVGGGGLISGV 165
Query: 279 GRFLKMMNKEIKVVGVEPAE------RSVISG--ENAGYVPSILD--------------- 315
K +N +KV+GVE AE S+ G + V +I D
Sbjct: 166 ASAAKQINPNVKVIGVE-AEGAPSMYESLREGKIKAVESVRTIADGIAVKKPGDLTFNII 224
Query: 316 VQLLDEVIKVTNDEAVNMARRLALEEGLLV 345
+ +D+V+ V +E N L LE ++
Sbjct: 225 KEYVDDVVTVDEEEIANAIYLL-LERHKIL 253
>gnl|CDD|236317 PRK08638, PRK08638, threonine dehydratase; Validated.
Length = 333
Score = 64.8 bits (158), Expect = 1e-11
Identities = 60/200 (30%), Positives = 90/200 (45%), Gaps = 21/200 (10%)
Query: 102 IGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGY---SMITDAEESGDITPGKTV 158
I +TP+ N ++E C G + KLE+M+ S K R + S +TDAE+ +
Sbjct: 25 IRKTPLPRSNYLSERCKGEIFLKLENMQRTGSFKIRGAFNKLSSLTDAEKRKGV------ 78
Query: 159 LVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGAL 218
V + GN G+A A+ G V MP + +GAE++L +
Sbjct: 79 -VACSAGNHAQGVALSCALLGIDGKVVMPKGAPKSKVAATCGYGAEVVLHG--DNFNDTI 135
Query: 219 DKAEEIVLNTPNAYMFQQFDN---MANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTI 275
K EEIV ++ +D+ +A + G EI ED L VD + IG GG I
Sbjct: 136 AKVEEIVEEEGRTFI-PPYDDPKVIAGQ----GTIGLEILED-LWDVDTVIVPIGGGGLI 189
Query: 276 TGTGRFLKMMNKEIKVVGVE 295
G LK +N I ++GV+
Sbjct: 190 AGIAVALKSINPTIHIIGVQ 209
>gnl|CDD|107206 cd01563, Thr-synth_1, Threonine synthase is a pyridoxal phosphate
(PLP) dependent enzyme that catalyses the last reaction
in the synthesis of threonine from aspartate. It
proceeds by converting O-phospho-L-homoserine (OPH) into
threonine and inorganic phosphate. In plants, OPH is an
intermediate between the methionine and
threonine/isoleucine pathways. Thus threonine synthase
competes for OPH with cystathionine-gamma-synthase, the
first enzyme in the methionine pathway. These enzymes
are in general dimers. Members of this CD, Thr-synth_1,
are widely distributed in bacteria, archaea and higher
plants.
Length = 324
Score = 63.8 bits (156), Expect = 2e-11
Identities = 67/294 (22%), Positives = 113/294 (38%), Gaps = 48/294 (16%)
Query: 88 DFHGVNIAEDVTQLIGRTPMVYLNKVTE-GCVGNVAAKLESMEPCRSVKDRIGYSMITDA 146
+ V + V+ G TP+V ++ E N+ K E + P S KDR ++ A
Sbjct: 6 ELLPVTEDDIVSLGEGNTPLVRAPRLGERLGGKNLYVKDEGLNPTGSFKDRGMTVAVSKA 65
Query: 147 EESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
+E G + +TGNT +A AA G K +V +PA L + A+GA ++
Sbjct: 66 KELG-----VKAVACASTGNTSASLAAYAARAGIKCVVFLPAGKALGKLAQALAYGATVL 120
Query: 207 LTDPEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDST-GPEIWEDTLG--CVD 263
+ G D A +V +++ ++ T EI E LG D
Sbjct: 121 ------AVEGNFDDALRLVRELAEENWIYLSNSLNPYRLEGQKTIAFEIAEQ-LGWEVPD 173
Query: 264 IFVAAIGTGGTITGTGRFLKMM------NKEIKVVGVEPA------------ERSVISGE 305
V +G GG IT + K + ++ ++VGV+ + + E
Sbjct: 174 YVVVPVGNGGNITAIWKGFKELKELGLIDRLPRMVGVQAEGAAPIVRAFKEGKDDIEPVE 233
Query: 306 NA---------GYVPSILDV-QLLDE----VIKVTNDEAVNMARRLALEEGLLV 345
N G S + + E + V+++E + + LA EG+ V
Sbjct: 234 NPETIATAIRIGNPASGPKALRAVRESGGTAVAVSDEEILEAQKLLARTEGIFV 287
>gnl|CDD|233712 TIGR02079, THD1, threonine dehydratase. This model represents
threonine dehydratase, the first step in the pathway
converting threonine into isoleucine. At least two other
clades of biosynthetic threonine dehydratases have been
charcterized (TIGR01124 and TIGR01127). Those sequences
described by this model are exclusively found in species
containg the rest of the isoleucine pathway and which
are generally lacking in members of the those other two
clades of threonine dehydratases. Members of this clade
are also often gene clustered with other elements of the
isoleucine pathway [Amino acid biosynthesis, Pyruvate
family].
Length = 409
Score = 59.0 bits (143), Expect = 9e-10
Identities = 50/206 (24%), Positives = 87/206 (42%), Gaps = 11/206 (5%)
Query: 95 AEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITP 154
+ + +++ TP+ +++E N+ K E ++P RS K R Y+ + ++
Sbjct: 7 RKRLKEVVPHTPLQLNERLSEKYGANIYLKREDLQPVRSYKIRGAYNFLKQLSDAQL--- 63
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAE---IILTDPE 211
+V + GN G A+ G V MPA+T ++ ++ FG E IIL
Sbjct: 64 -AKGVVCASAGNHAQGFAYACRHLGVHGTVFMPATTPKQKIDRVKIFGGEFIEIILVGDT 122
Query: 212 KGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGT 271
A A E V + FD+ ++ + EI + D V +G
Sbjct: 123 FDQCAA--AAREHVEDH-GGTFIPPFDDPRIIEGQ-GTVAAEILDQLPEKPDYVVVPVGG 178
Query: 272 GGTITGTGRFLKMMNKEIKVVGVEPA 297
GG I+G +L + + K++GVEP
Sbjct: 179 GGLISGLTTYLAGTSPKTKIIGVEPE 204
>gnl|CDD|180550 PRK06382, PRK06382, threonine dehydratase; Provisional.
Length = 406
Score = 59.1 bits (143), Expect = 9e-10
Identities = 50/199 (25%), Positives = 94/199 (47%), Gaps = 19/199 (9%)
Query: 102 IGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDR---IGYSMITDAEESGDITPGKTV 158
+ RTP+++ + G++ KLE+ + S K R +S +++ E +
Sbjct: 23 LNRTPLIHSTTFGDEYGGDIYFKLENFQKTGSFKSRGAVFKFSKLSEDEL-------RNG 75
Query: 159 LVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILT--DPEKGLRG 216
++ + GN G+A+ A++ G + MP T ++ + A+GA +ILT D ++ R
Sbjct: 76 VITASAGNHAQGVAYAASINGIDAKIVMPEYTIPQKVNAVEAYGAHVILTGRDYDEAHRY 135
Query: 217 ALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTIT 276
A A + N + F++ + + G EI ED L +D + +G GG I+
Sbjct: 136 ADKIAMD-----ENRTFIEAFNDRWVISGQ-GTIGLEIMED-LPDLDQIIVPVGGGGLIS 188
Query: 277 GTGRFLKMMNKEIKVVGVE 295
G K +N +K++G+E
Sbjct: 189 GIALAAKHINPNVKIIGIE 207
>gnl|CDD|236318 PRK08639, PRK08639, threonine dehydratase; Validated.
Length = 420
Score = 57.1 bits (139), Expect = 4e-09
Identities = 61/227 (26%), Positives = 97/227 (42%), Gaps = 44/227 (19%)
Query: 95 AEDVTQ-------LIGRTPM---VYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMI- 143
A+D+ + ++ TP+ YL++ G NV K E ++P RS K R Y+ I
Sbjct: 9 AKDIDKAAKRLKDVVPETPLQRNDYLSEKY-GA--NVYLKREDLQPVRSYKLRGAYNAIS 65
Query: 144 --TDAEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAF 201
+D E + + V + GN G+A+ G ++ MP +T ++ +R F
Sbjct: 66 QLSDEELAAGV-------VCASAGNHAQGVAYACRHLGIPGVIFMPVTTPQQKIDQVRFF 118
Query: 202 GA---EIILTDPEKG------LRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGP 252
G EI+L G A + AEE A FD+ ++ +
Sbjct: 119 GGEFVEIVLV----GDTFDDSAAAAQEYAEET-----GATFIPPFDD-PDVIAGQGTVAV 168
Query: 253 EIWED--TLGCVDIFVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPA 297
EI E G D +G GG I+G +LK + + K++GVEPA
Sbjct: 169 EILEQLEKEGSPDYVFVPVGGGGLISGVTTYLKERSPKTKIIGVEPA 215
>gnl|CDD|130194 TIGR01124, ilvA_2Cterm, threonine ammonia-lyase, biosynthetic, long
form. This model describes a form of threonine
ammonia-lyase, a pyridoxal-phosphate dependent enzyme,
with two copies of the threonine dehydratase C-terminal
domain (pfam00585). Members with known function
participate in isoleucine biosynthesis and are inhibited
by isoleucine. Alternate name: threonine deaminase,
threonine dehydratase. Forms scoring between the trusted
and noise cutoff tend to branch with this subgroup of
threonine ammonia-lyase phylogenetically but have only a
single copy of the C-terminal domain [Amino acid
biosynthesis, Pyruvate family].
Length = 499
Score = 56.7 bits (137), Expect = 6e-09
Identities = 69/259 (26%), Positives = 103/259 (39%), Gaps = 54/259 (20%)
Query: 105 TPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMIT----DAEESGDITPGKTVLV 160
TP+ K++E + K E ++P S K R Y+ + + + G I
Sbjct: 18 TPLQKAAKLSERLGNRILIKREDLQPVFSFKLRGAYNKMAQLSPEQKARGVIAA------ 71
Query: 161 EPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRG---- 216
+ GN G+AF AA G K ++ MP +T + +R FG E++ L G
Sbjct: 72 --SAGNHAQGVAFSAARLGLKALIVMPETTPDIKVDAVRGFGGEVV-------LHGANFD 122
Query: 217 -ALDKAEEIVLNTPNAYMF-QQFDNMANLKIHFDST-GPEIWEDTLGCVD-IFVAAIGTG 272
A KA E L+ F FD+ L I T EI +D +FV +G G
Sbjct: 123 DAKAKAIE--LSQEKGLTFIHPFDD--PLVIAGQGTLALEILRQVANPLDAVFV-PVGGG 177
Query: 273 GTITGTGRFLKMMNKEIKVVGVEPAERSVISGE-NAGYVPSILDV--------------- 316
G G +K + EIKV+GVEP + + +AG + V
Sbjct: 178 GLAAGVAALIKQLMPEIKVIGVEPTDSDCMKQALDAGEPVDLDQVGLFADGVAVKRVGDE 237
Query: 317 ------QLLDEVIKVTNDE 329
Q LD+++ V DE
Sbjct: 238 TFRLCQQYLDDIVTVDTDE 256
>gnl|CDD|236182 PRK08198, PRK08198, threonine dehydratase; Provisional.
Length = 404
Score = 55.9 bits (136), Expect = 1e-08
Identities = 61/206 (29%), Positives = 92/206 (44%), Gaps = 33/206 (16%)
Query: 104 RTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMIT--DAEESGDITPGKTVLVE 161
RTP+ Y ++E V K E+++ S K R Y+ I EE +V
Sbjct: 22 RTPLEYSRTLSELTGAEVYLKCENLQRTGSFKIRGAYNKIASLSEEE------RARGVVA 75
Query: 162 PTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDKA 221
+ GN G+A+ A++ G K + MP + L + R++GAE++L AL KA
Sbjct: 76 ASAGNHAQGVAYAASLLGIKATIVMPETAPLSKVKATRSYGAEVVLHG--DVYDEALAKA 133
Query: 222 EEIVLNTPNAYMFQQFDNMANLKIH-FD---------STGPEIWEDTLGCVDIFVAAIGT 271
+E+ T F +H FD + G EI ED L VD V IG
Sbjct: 134 QELAEET--GATF----------VHPFDDPDVIAGQGTIGLEILED-LPDVDTVVVPIGG 180
Query: 272 GGTITGTGRFLKMMNKEIKVVGVEPA 297
GG I+G +K + E++V+GV+
Sbjct: 181 GGLISGVATAVKALRPEVRVIGVQAE 206
>gnl|CDD|223572 COG0498, ThrC, Threonine synthase [Amino acid transport and
metabolism].
Length = 411
Score = 53.9 bits (130), Expect = 4e-08
Identities = 56/270 (20%), Positives = 89/270 (32%), Gaps = 67/270 (24%)
Query: 119 GNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPTTGNTGLGIAFVAAVK 178
N+ K P S KDR +++ A+E G T ++ ++GNTG A AA
Sbjct: 94 DNLYVKELGHNPTGSFKDRGMTVLVSLAKELGAKT-----ILCASSGNTGASAAAYAARA 148
Query: 179 GYKLIVTMPAS-TNLERRILLRAFGAEIILTDPEKGLRGALDKAEEIVLNTPNAYMFQQF 237
G K+ V P + + + GA +I + G D A+E+V
Sbjct: 149 GLKVFVLYPKGKVSPGKLAQMLTLGAHVI------AVDGNFDDAQELV------------ 190
Query: 238 DNMANLKIHFDSTGP--------------EIWEDTLGCV-DIFVAAIGTGGTITG----- 277
AN + + EI E D V +G GG +
Sbjct: 191 KEAANREGLLSAVNSINPYRLEGQKTYAFEIAEQLGWKAPDHVVVPVGNGGNLLAIYKGF 250
Query: 278 -----TGRFLKMMNKEIKVV--GVEP-AERSVISGENAG--------YVPSILD--VQLL 319
G+ + V G P E PS + + L
Sbjct: 251 KEGLPIGK-IDKAPNMNGVQAEGFSPGVYAWKEGRETPETIAPAMDIGNPSNWERALFAL 309
Query: 320 DE----VIKVTNDEAVNMARRLALEEGLLV 345
E + V+++E + + LA EG+L+
Sbjct: 310 RESGGLAVAVSDEEILEAIKLLAEREGILI 339
>gnl|CDD|181457 PRK08526, PRK08526, threonine dehydratase; Provisional.
Length = 403
Score = 52.0 bits (125), Expect = 2e-07
Identities = 47/213 (22%), Positives = 85/213 (39%), Gaps = 37/213 (17%)
Query: 96 EDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPG 155
+ ++ + +TP Y +++ V K E+++ + K R Y+ I + E
Sbjct: 12 QRISGFVNKTPFAYAPFLSKISGAEVYLKKENLQITGAYKIRGAYNKIANLSEEQK---- 67
Query: 156 KTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDP----- 210
+ ++ + GN G+A A G K ++ MP +T L + +A GAE+IL
Sbjct: 68 QHGVIAASAGNHAQGVAISAKKFGIKAVIVMPEATPLLKVSGTKALGAEVILKGDNYDEA 127
Query: 211 -EKGLRGALDK--------AEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGC 261
L A + +E V+ + D +++L
Sbjct: 128 YAFALEYAKENNLTFIHPFEDEEVMAGQGTIALEMLDEISDL------------------ 169
Query: 262 VDIFVAAIGTGGTITGTGRFLKMMNKEIKVVGV 294
D+ V +G GG I+G K +N IK++GV
Sbjct: 170 -DMVVVPVGGGGLISGIASAAKQINPNIKIIGV 201
>gnl|CDD|237111 PRK12483, PRK12483, threonine dehydratase; Reviewed.
Length = 521
Score = 51.3 bits (123), Expect = 3e-07
Identities = 70/244 (28%), Positives = 102/244 (41%), Gaps = 49/244 (20%)
Query: 118 VGN-VAAKLESMEPCRSVKDRIGYSMI----TDAEESGDITPGKTVLVEPTTGNTGLGIA 172
+GN V K E ++P S K R Y+ + + G IT + GN G+A
Sbjct: 50 LGNQVLLKREDLQPVFSFKIRGAYNKMARLPAEQLARGVITA--------SAGNHAQGVA 101
Query: 173 FVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPE--KGLRGALDKAEE--IVLNT 228
AA G K ++ MP +T + +RA G E++L L AL AEE +
Sbjct: 102 LAAARLGVKAVIVMPRTTPQLKVDGVRAHGGEVVLHGESFPDALAHALKLAEEEGLTFVP 161
Query: 229 PNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVD-IFVAAIGTGGTITGTGRFLKMMNK 287
P F D +A + EI G +D IFV +G GG I G ++K +
Sbjct: 162 P----FDDPDVIAGQ----GTVAMEILRQHPGPLDAIFVP-VGGGGLIAGIAAYVKYVRP 212
Query: 288 EIKVVGVEP-----------AERSVISGENAGYVPSILDVQL-----------LDEVIKV 325
EIKV+GVEP A V+ G+ + + Q+ +DEV+ V
Sbjct: 213 EIKVIGVEPDDSNCLQAALAAGERVVLGQVGLFADGVAVAQIGEHTFELCRHYVDEVVTV 272
Query: 326 TNDE 329
+ DE
Sbjct: 273 STDE 276
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 50.9 bits (123), Expect = 5e-07
Identities = 74/278 (26%), Positives = 109/278 (39%), Gaps = 79/278 (28%)
Query: 97 DVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMI---TDAE-ESGDI 152
DV Q TP+ K++ V K E ++P S K R Y+ + T+ + G I
Sbjct: 16 DVAQ---ETPLEKAPKLSARLGNQVLLKREDLQPVFSFKLRGAYNKMAQLTEEQLARGVI 72
Query: 153 TPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIIL---TD 209
T + GN G+A AA G K ++ MP +T + +RAFG E++L +
Sbjct: 73 TA--------SAGNHAQGVALSAARLGIKAVIVMPVTTPDIKVDAVRAFGGEVVLHGDSF 124
Query: 210 PEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIH-FD---------STGPEIWEDTL 259
E A A E L F IH FD + EI +
Sbjct: 125 DE-----AYAHAIE--LAEEEGLTF----------IHPFDDPDVIAGQGTIAMEILQQHP 167
Query: 260 GCVD-IFVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPAE-----RSVISGENAGYVPSI 313
+D +FV +G GG I G ++K + EIKV+GVEP + ++ +GE
Sbjct: 168 HPLDAVFVP-VGGGGLIAGVAAYIKQLRPEIKVIGVEPEDSACLKAALEAGE-----RVD 221
Query: 314 LD----------V------------QLLDEVIKVTNDE 329
L V + +D+VI V DE
Sbjct: 222 LPQVGLFADGVAVKRIGEETFRLCQEYVDDVITVDTDE 259
>gnl|CDD|180709 PRK06815, PRK06815, hypothetical protein; Provisional.
Length = 317
Score = 49.3 bits (118), Expect = 1e-06
Identities = 64/257 (24%), Positives = 103/257 (40%), Gaps = 57/257 (22%)
Query: 119 GNVAAKLESMEPCRSVKDRIGYS----MITDAEESGDITPGKTVLVEPTTGNTGLGIAFV 174
V K E ++ S K R G S ++ +A+ + + ++GN G G+A
Sbjct: 35 CEVYLKCEHLQHTGSFKFR-GASNKLRLLNEAQRQQGV-------ITASSGNHGQGVALA 86
Query: 175 AAVKGYKLIVTMPASTNLERRILLRAFGAEIIL--TDPEKGLRGALDKAEEIVL------ 226
A + G + V P + + +RA GAE+ L D A AE+
Sbjct: 87 AKLAGIPVTVYAPEQASAIKLDAIRALGAEVRLYGGDALNAELAARRAAEQQGKVYISPY 146
Query: 227 NTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGRFLKMMN 286
N P Q + G E+ E +FVA +G GG I+G +LK ++
Sbjct: 147 NDPQVIAGQ------------GTIGMELVEQQPDLDAVFVA-VGGGGLISGIATYLKTLS 193
Query: 287 KEIKVVG------------------VEPAERSVISGENAGYVP--SI---LDVQLLDEVI 323
+ +++G VE AE+ +S AG V +I L QL+D+ +
Sbjct: 194 PKTEIIGCWPANSPSLYTSLEAGEIVEVAEQPTLSDGTAGGVEPGAITFPLCQQLIDQKV 253
Query: 324 KVTNDEAVNMARRLALE 340
V+ +E + A RL E
Sbjct: 254 LVSEEE-IKEAMRLIAE 269
>gnl|CDD|181319 PRK08246, PRK08246, threonine dehydratase; Provisional.
Length = 310
Score = 47.3 bits (113), Expect = 5e-06
Identities = 56/213 (26%), Positives = 85/213 (39%), Gaps = 35/213 (16%)
Query: 95 AEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITP 154
A+ + I RTP++ + G V KLE ++ S K R ++ + A P
Sbjct: 14 AQRIAPHIRRTPVLEADGAGFGPAP-VWLKLEHLQHTGSFKARGAFNRLLAAPV-----P 67
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGL 214
V V + GN GL +A+ AA G V +P + + LRA GAE+++ E
Sbjct: 68 AAGV-VAASGGNAGLAVAYAAAALGVPATVFVPETAPPAKVARLRALGAEVVVVGAE--Y 124
Query: 215 RGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEI----------WEDTLGCVDI 264
AL+ A+ T A + +D PE+ E+ VD
Sbjct: 125 ADALEAAQAFAAET-GALLCHAYDQ------------PEVLAGAGTLGLEIEEQAPGVDT 171
Query: 265 FVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPA 297
+ A+G GG I G + +VV VEP
Sbjct: 172 VLVAVGGGGLIAGIAAW---FEGRARVVAVEPE 201
>gnl|CDD|235539 PRK05638, PRK05638, threonine synthase; Validated.
Length = 442
Score = 46.7 bits (111), Expect = 1e-05
Identities = 58/270 (21%), Positives = 112/270 (41%), Gaps = 40/270 (14%)
Query: 103 GRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEP 162
G TP++ +++E NV K E+ P S +DR+ ++ + +
Sbjct: 65 GGTPLIR-ARISEKLGENVYIKDETRNPTGSFRDRLATVAVSYG-----LPYAANGFIVA 118
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDKAE 222
+ GN +A +A G + V +P + + I + AFGA+II + + A++ AE
Sbjct: 119 SDGNAAASVAAYSARAGKEAFVVVPRKVDKGKLIQMIAFGAKIIRY--GESVDEAIEYAE 176
Query: 223 EIV-LNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGR- 280
E+ LN Y N+ L+ + E+WE+ + + V G+G + +
Sbjct: 177 ELARLN--GLYNVTPEYNIIGLE-GQKTIAFELWEE-INPTHVIV-PTGSGSYLYSIYKG 231
Query: 281 FLKMMNKEI-----KVVGVEPAERSVISGENAG-------------YVPSILDVQLLDEV 322
F +++ + K++ V+ + I+ E G YV + + + + E
Sbjct: 232 FKELLEIGVIEEIPKLIAVQTERCNPIASEILGNKTKCNETKALGLYVKNPVMKEYVSEA 291
Query: 323 IK-------VTNDEAVNMARRLALEEGLLV 345
IK V N+E + +L +EG+
Sbjct: 292 IKESGGTAVVVNEEEIMAGEKLLAKEGIFA 321
>gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed.
Length = 352
Score = 45.4 bits (107), Expect = 2e-05
Identities = 47/183 (25%), Positives = 74/183 (40%), Gaps = 13/183 (7%)
Query: 97 DVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGK 156
DV+ + G TP++ L +++ + K E P S KDR + A+E G
Sbjct: 21 DVSLMEGNTPLIPLLNISKQLGIQLYGKYEGANPTGSFKDRGMVMAVAKAKEE-----GS 75
Query: 157 TVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLR-AFGAEIILTDPEKGLR 215
++ +TGNT A AA G K I+ +P ++ A+GAEII +
Sbjct: 76 EAIICASTGNTSASAAAYAARLGMKCIIVIPEGKIAHGKLAQAVAYGAEII------SIE 129
Query: 216 GALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGP-EIWEDTLGCVDIFVAAIGTGGT 274
G D A + V N +++ +I T EI + D+ +G G
Sbjct: 130 GNFDDALKAVRNIAAEEPITLVNSVNPYRIEGQKTAAFEICDQLQRAPDVLAIPVGNAGN 189
Query: 275 ITG 277
IT
Sbjct: 190 ITA 192
>gnl|CDD|234245 TIGR03528, 2_3_DAP_am_ly, diaminopropionate ammonia-lyase. Members
of this protein family are the homodimeric, pyridoxal
phosphate enzyme diaminopropionate ammonia-lyase, which
adds water to remove two amino groups, leaving pyruvate.
Length = 396
Score = 44.7 bits (106), Expect = 4e-05
Identities = 31/79 (39%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 147 EESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
E+ GDIT V T GN G G+A+ A G K +V MP + ER +RA GAE
Sbjct: 109 EKLGDIT-----FVTATDGNHGRGVAWAANQLGQKSVVYMPKGSAQERLENIRAEGAECT 163
Query: 207 LTDP--EKGLRGALDKAEE 223
+TD + +R A A+E
Sbjct: 164 ITDLNYDDAVRLAWKMAQE 182
>gnl|CDD|235789 PRK06381, PRK06381, threonine synthase; Validated.
Length = 319
Score = 44.3 bits (105), Expect = 5e-05
Identities = 36/111 (32%), Positives = 52/111 (46%), Gaps = 12/111 (10%)
Query: 103 GRTPMVYLNKVTEGCVG--NVAAKLESMEPCRSVKDRIGYSMITDAEESG--DITPGKTV 158
G TP++ K+ E +G + K E P + KDRI + + A G IT G
Sbjct: 14 GGTPLLRARKL-EEELGLRKIYLKFEGANPTGTQKDRIAEAHVRRAMRLGYSGITVG--- 69
Query: 159 LVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTD 209
T GN G IA+ A + G K ++ +P S + R + +GAEII D
Sbjct: 70 ----TCGNYGASIAYFARLYGLKAVIFIPRSYSNSRVKEMEKYGAEIIYVD 116
>gnl|CDD|132036 TIGR02991, ectoine_eutB, ectoine utilization protein EutB. Members
of this protein family are EutB, a predicted
arylmalonate decarboxylase found in a conserved ectoine
utilization operon of species that include Sinorhizobium
meliloti 1021 (where it is known to be induced by
ectoine), Mesorhizobium loti, Silicibacter pomeroyi,
Agrobacterium tumefaciens, and Pseudomonas putida.
Members of this family resemble threonine dehydratases.
Length = 317
Score = 43.7 bits (103), Expect = 8e-05
Identities = 65/277 (23%), Positives = 104/277 (37%), Gaps = 37/277 (13%)
Query: 95 AEDVTQLIGRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITP 154
A ++ + TP+V ++E C V KLE + S K R T+A S T
Sbjct: 10 AARISGRVEETPLVESPSLSELCGVPVHLKLEHRQTTGSFKLRGA----TNAVLSLSDTQ 65
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGL 214
+V +TGN G +A+ AA +G + + M + +R GAE+ +
Sbjct: 66 RAAGVVAASTGNHGRALAYAAAEEGVRATICMSELVPQNKVDEIRRLGAEVRIVG----- 120
Query: 215 RGALDKAEEI--VLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTG 272
R D EE+ ++ M FD+ + + G E+ E + V G G
Sbjct: 121 RSQDDAQEEVERLVADRGLTMLPPFDHPDIVAGQ-GTLGLEVVEQMPDLATVLVPLSG-G 178
Query: 273 GTITGTGRFLKMMNKEIKVVGVE-----------PAERSVISGENAGYVPSI-------- 313
G +G +K + +V+GV A R V+ E S+
Sbjct: 179 GLASGVAMAVKAARPDTRVIGVSMERGAAMKASLQAGRPVLVAELPTLADSLGGGIGLDN 238
Query: 314 -----LDVQLLDEVIKVTNDEAVNMARRLALEEGLLV 345
+ LLDE++ V+ E R EE +V
Sbjct: 239 RVTFAMCKALLDEIVLVSEAEIAAGIRHAYAEEREIV 275
>gnl|CDD|235842 PRK06608, PRK06608, threonine dehydratase; Provisional.
Length = 338
Score = 43.6 bits (103), Expect = 8e-05
Identities = 51/214 (23%), Positives = 94/214 (43%), Gaps = 35/214 (16%)
Query: 98 VTQLIGRTPMVY---LNKVTEGCVGN-VAAKLESMEPCRSVKDRIGYSMITDAEESGDIT 153
+ Q + TP+V+ LN++ G+ + K+ES++ + K R + + + +E G +
Sbjct: 17 IKQYLHLTPIVHSESLNEML----GHEIFFKVESLQKTGAFKVRGVLNHLLELKEQGKL- 71
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKG 213
P K +V +TGN G +A+ + + G K + +P +T+ ++ +G E+ILT+
Sbjct: 72 PDK--IVAYSTGNHGQAVAYASKLFGIKTRIYLPLNTSKVKQQAALYYGGEVILTNTR-- 127
Query: 214 LRGALDKAEEIVL--NTPNAYMFQQFDNMANLKIHFDST-------GPEIWEDTLGCVDI 264
+AEE Y D+ DST E + D
Sbjct: 128 -----QEAEEKAKEDEEQGFYYIHPSDS--------DSTIAGAGTLCYEALQQLGFSPDA 174
Query: 265 FVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPAE 298
A+ G GG I+GT ++++ ++G EP
Sbjct: 175 IFASCGGGGLISGTYLAKELISPTSLLIGSEPLN 208
>gnl|CDD|178165 PLN02550, PLN02550, threonine dehydratase.
Length = 591
Score = 43.8 bits (103), Expect = 1e-04
Identities = 47/202 (23%), Positives = 81/202 (40%), Gaps = 24/202 (11%)
Query: 105 TPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMIT----DAEESGDITPGKTVLV 160
+P+ K++E V K E ++P S K R Y+M+ + + G I
Sbjct: 110 SPLQLAKKLSERLGVKVLLKREDLQPVFSFKLRGAYNMMAKLPKEQLDKGVICS------ 163
Query: 161 EPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILT----DPEKGLRG 216
+ GN G+A A G ++ MP +T + + GA ++L D +
Sbjct: 164 --SAGNHAQGVALSAQRLGCDAVIAMPVTTPEIKWQSVERLGATVVLVGDSYDEAQAYAK 221
Query: 217 ALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTIT 276
E P FD+ ++ + G EI G + +G GG I
Sbjct: 222 QRALEEGRTFIPP-------FDH-PDVIAGQGTVGMEIVRQHQGPLHAIFVPVGGGGLIA 273
Query: 277 GTGRFLKMMNKEIKVVGVEPAE 298
G ++K + E+K++GVEP++
Sbjct: 274 GIAAYVKRVRPEVKIIGVEPSD 295
>gnl|CDD|232896 TIGR00260, thrC, threonine synthase. Involved in threonine
biosynthesis it catalyses the reaction
O-PHOSPHO-L-HOMOSERINE + H(2)O = L-THREONINE +
ORTHOPHOSPHATE using pyridoxal phosphate as a cofactor.
the enzyme is distantly related to the serine/threonine
dehydratases which are also pyridoxal-phosphate
dependent enzymes. the pyridoxal-phosphate binding site
is a Lys (K) residues present at residue 70 of the model
[Amino acid biosynthesis, Aspartate family].
Length = 328
Score = 42.4 bits (100), Expect = 2e-04
Identities = 40/141 (28%), Positives = 59/141 (41%), Gaps = 16/141 (11%)
Query: 89 FHGVNIAEDVTQLI-GRTPMVYLNKVTEGCVG--NVAAKLESMEPCRSVKDRIGYSMITD 145
F V +D+ L G TP+ + VG N+ P S KDR +T
Sbjct: 7 FLPVTPEKDLVDLGEGVTPLFRSPALVA-NVGIKNLYVLELFHNPTLSFKDRGMAVALTK 65
Query: 146 AEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPA-STNLERRILLRAFGAE 204
A E G+ TVL +TGNTG A A G K+++ PA +L + + AE
Sbjct: 66 ALELGN----DTVLCA-STGNTGAAAAAYAGKAGVKVVILYPAGKISLGKLAQALGYNAE 120
Query: 205 IILTDPEKGLRGALDKAEEIV 225
++ + G D A+ +V
Sbjct: 121 VV------AIDGNFDDAQRLV 135
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 41.6 bits (98), Expect = 4e-04
Identities = 27/151 (17%), Positives = 56/151 (37%), Gaps = 22/151 (14%)
Query: 147 EESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
+ + PG+TVLV G G +A G ++ ++ E+ LL+ GA+ +
Sbjct: 135 FDRAGLKPGETVLVHGAAGGVGSAAIQLAKALGATVVAV---VSSSEKLELLKELGADHV 191
Query: 207 LTDPEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCV--DI 264
+ E+ + + + D + D+ G + + +L +
Sbjct: 192 INYREEDFVEQVRELTG----------GKGVDVV------LDTVGGDTFAASLAALAPGG 235
Query: 265 FVAAIG-TGGTITGTGRFLKMMNKEIKVVGV 294
+ +IG G L ++ K + + GV
Sbjct: 236 RLVSIGALSGGPPVPLNLLPLLGKRLTLRGV 266
>gnl|CDD|130808 TIGR01747, diampropi_NH3ly, diaminopropionate ammonia-lyase family.
This small subfamily includes diaminopropionate
ammonia-lyase from Salmonella typhimurium and a small
number of close homologs, about 50 % identical in
sequence. The enzyme is a pyridoxal phosphate-binding
homodimer homologous to threonine dehydratase (threonine
deaminase) [Energy metabolism, Other].
Length = 376
Score = 41.4 bits (97), Expect = 4e-04
Identities = 20/55 (36%), Positives = 27/55 (49%)
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTD 209
G+ T GN G G+A+ A G K +V MP + ER + GAE +TD
Sbjct: 93 GQATFATATDGNHGRGVAWAAQQLGQKAVVYMPKGSAQERVENILNLGAECTITD 147
>gnl|CDD|236244 PRK08329, PRK08329, threonine synthase; Validated.
Length = 347
Score = 40.6 bits (95), Expect = 7e-04
Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 12/101 (11%)
Query: 105 TPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPTT 164
TP V + V KL+ ++P S KDR Y + +E G V+++ ++
Sbjct: 65 TPTVKRSI-------KVYFKLDYLQPTGSFKDRGTYVTVAKLKEEGI----NEVVID-SS 112
Query: 165 GNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEI 205
GN L +A + +G K+ V + + + E+ LL GAE+
Sbjct: 113 GNAALSLALYSLSEGIKVHVFVSYNASKEKISLLSRLGAEL 153
>gnl|CDD|235757 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 40.7 bits (96), Expect = 7e-04
Identities = 37/127 (29%), Positives = 55/127 (43%), Gaps = 17/127 (13%)
Query: 103 GRTPMVYLNKV-TEGCVGNVAAKLESMEPCRSVKDRIGYSM-ITDAEESGDITPGKTVLV 160
G TP+ + E V + K E P S KDR G ++ +T A E G +
Sbjct: 66 GGTPLYRCPNLEKELGVKELYVKHEGANPTGSFKDR-GMTVGVTKALELG-----VKTVA 119
Query: 161 EPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRA--FGAEIILTDPEKGLRGAL 218
+TGNT +A AA G K V +PA + L +A GA+++ + G
Sbjct: 120 CASTGNTSASLAAYAARAGLKCYVLLPAG-KVALGKLAQALLHGAKVL------EVDGNF 172
Query: 219 DKAEEIV 225
D A ++V
Sbjct: 173 DDALDMV 179
>gnl|CDD|236186 PRK08206, PRK08206, diaminopropionate ammonia-lyase; Provisional.
Length = 399
Score = 39.5 bits (93), Expect = 0.002
Identities = 26/64 (40%), Positives = 35/64 (54%), Gaps = 5/64 (7%)
Query: 146 AEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEI 205
E+ GDIT T GN G G+A+ A G K ++ MP ++ ER +RA GAE
Sbjct: 111 REKLGDIT-----FATATDGNHGRGVAWAAQQLGQKAVIYMPKGSSEERVDAIRALGAEC 165
Query: 206 ILTD 209
I+TD
Sbjct: 166 IITD 169
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 38.8 bits (91), Expect = 0.002
Identities = 35/154 (22%), Positives = 59/154 (38%), Gaps = 28/154 (18%)
Query: 146 AEESGDITPGKTVLVEPTTGNTGLGIAFVAAVK--GYKLIVTMPASTNLERRILLRAFGA 203
+G + PG TVLV G G+G+ K G ++IVT + LE L + GA
Sbjct: 126 LRRAGVLKPGDTVLV---LGAGGVGLLAAQLAKAAGARVIVTDRSDEKLE---LAKELGA 179
Query: 204 EIILTDPEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTG-PEIWEDTLGCV 262
+ ++ E+ D EE+ L D + D+ G PE L +
Sbjct: 180 DHVIDYKEE------DLEEELRLTGGGG-----AD------VVIDAVGGPETLAQALRLL 222
Query: 263 DIF--VAAIGTGGTITGTGRFLKMMNKEIKVVGV 294
+ +G +++ KE+ ++G
Sbjct: 223 RPGGRIVVVGGTSGGPPLDDLRRLLFKELTIIGS 256
>gnl|CDD|181283 PRK08197, PRK08197, threonine synthase; Validated.
Length = 394
Score = 39.2 bits (92), Expect = 0.002
Identities = 34/109 (31%), Positives = 51/109 (46%), Gaps = 8/109 (7%)
Query: 103 GRTPMVYLNKVTEGC-VGNVAAKLESMEPCRSVKDRIGYSM-ITDAEESGDITPGKTVLV 160
G TP++ L ++ + +G + K E + P S K R G ++ ++ A+E G L
Sbjct: 78 GMTPLLPLPRLGKALGIGRLWVKDEGLNPTGSFKAR-GLAVGVSRAKELG-----VKHLA 131
Query: 161 EPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTD 209
PT GN G A AA G + + MPA R+ GAE+ L D
Sbjct: 132 MPTNGNAGAAWAAYAARAGIRATIFMPADAPEITRLECALAGAELYLVD 180
>gnl|CDD|235918 PRK07048, PRK07048, serine/threonine dehydratase; Validated.
Length = 321
Score = 38.8 bits (91), Expect = 0.003
Identities = 37/156 (23%), Positives = 62/156 (39%), Gaps = 26/156 (16%)
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDK-- 220
++GN IA A + G + MP + R +G E++ D R + +
Sbjct: 79 SSGNHAQAIALSARLLGIPATIVMPQDAPAAKVAATRGYGGEVVTYDRYTEDREEIGRRL 138
Query: 221 AEEIVLNTPNAYMFQQFDNMANLKIHFD------STGPEIWEDTLGCVDIFVAAIGTGGT 274
AEE L + +D H + E++E+ G +D +G GG
Sbjct: 139 AEERGLT-----LIPPYD-------HPHVIAGQGTAAKELFEEV-GPLDALFVCLGGGGL 185
Query: 275 ITGTGRFLKMMNKEIKVVGVEP-----AERSVISGE 305
++G + ++ KV GVEP ++S SGE
Sbjct: 186 LSGCALAARALSPGCKVYGVEPEAGNDGQQSFRSGE 221
>gnl|CDD|107209 cd06448, L-Ser-dehyd, Serine dehydratase is a pyridoxal phosphate
(PLP)-dependent enzyme which catalyzes the conversion of
L- , D-serine, or L-threonine to pyruvate/ketobutyrate
and ammonia.
Length = 316
Score = 37.3 bits (87), Expect = 0.009
Identities = 58/214 (27%), Positives = 85/214 (39%), Gaps = 47/214 (21%)
Query: 105 TPM---VYLNKVTEGCVGNVAAKLESMEPCRSVKDR-IGYSMITDAEESGDITPGKTVLV 160
TP+ L+K GC NV KLE+++P S K R IG+ A++ +V
Sbjct: 2 TPLIESTALSKTA-GC--NVFLKLENLQPSGSFKIRGIGHLCQKSAKQ---GLNECVHVV 55
Query: 161 EPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILT-----DPEKGLR 215
+ GN GL A+ A G + +P ST LR GA +++ + + LR
Sbjct: 56 CSSGGNAGLAAAYAARKLGVPCTIVVPESTKPRVVEKLRDEGATVVVHGKVWWEADNYLR 115
Query: 216 GALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWE-------------DTLGCV 262
EE+ N P FD+ P IWE + V
Sbjct: 116 ------EELAENDPGPVYVHPFDD------------PLIWEGHSSMVDEIAQQLQSQEKV 157
Query: 263 DIFVAAIGTGGTITGTGRFLKMMN-KEIKVVGVE 295
D V ++G GG + G + L+ +I VV VE
Sbjct: 158 DAIVCSVGGGGLLNGIVQGLERNGWGDIPVVAVE 191
>gnl|CDD|235699 PRK06110, PRK06110, hypothetical protein; Provisional.
Length = 322
Score = 36.9 bits (86), Expect = 0.010
Identities = 17/53 (32%), Positives = 27/53 (50%)
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
P ++ T GN G +AF A G + +P ++E+ +RA GAE+I
Sbjct: 68 PRVRGVISATRGNHGQSVAFAARRHGLAATIVVPHGNSVEKNAAMRALGAELI 120
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 36.8 bits (86), Expect = 0.012
Identities = 22/111 (19%), Positives = 43/111 (38%), Gaps = 14/111 (12%)
Query: 138 IGYSMITDAEESGDITPGKTVLVEPTTGNTGLGIAFV--AAVKGYKLIVTMPASTNLERR 195
Y + A + PGK V V G GLG V A G ++I + + E+
Sbjct: 154 TTYRALKKAN----VKPGKWVAV---VGAGGLGHMAVQYAKAMGAEVIA---ITRSEEKL 203
Query: 196 ILLRAFGAEIILTDPEKGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIH 246
L + GA+ ++ + A+ + + +++T + + L+
Sbjct: 204 ELAKKLGADHVINSSDSDALEAVKEIADAIIDTVGPATLEPS--LKALRRG 252
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 36.6 bits (85), Expect = 0.015
Identities = 36/123 (29%), Positives = 59/123 (47%), Gaps = 20/123 (16%)
Query: 103 GRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEP 162
GRTP++ GN+ KL+ + P S KDR ++I+ E G + E
Sbjct: 57 GRTPLIK--------KGNIWFKLDFLNPTGSYKDRGSVTLISYLAEK-----GIKQISED 103
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMP--ASTNLERRILLRAFGAEIILTDPEKGLRGALDK 220
++GN G IA A G ++ + +P AS ++I ++GAE++ +G R + K
Sbjct: 104 SSGNAGASIAAYGAAAGIEVKIFVPETASGGKLKQIE--SYGAEVVRV---RGSREDVAK 158
Query: 221 AEE 223
A E
Sbjct: 159 AAE 161
>gnl|CDD|235994 PRK07334, PRK07334, threonine dehydratase; Provisional.
Length = 403
Score = 36.4 bits (85), Expect = 0.016
Identities = 54/213 (25%), Positives = 89/213 (41%), Gaps = 47/213 (22%)
Query: 104 RTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIG----YSMITDAE-ESGDITPGKTV 158
RTP V+ +++ V K E+++ S K+R G ++T+ E G I
Sbjct: 23 RTPCVHSRTLSQITGAEVWLKFENLQFTASFKER-GALNKLLLLTEEERARGVIAM---- 77
Query: 159 LVEPTTGNTGLGIAFVAAVKGYKLIVTMPAST---NLERRILLRAFGAEIILTDPEKGLR 215
+ GN G+A+ A G + MP T +ER R FGAE++L
Sbjct: 78 ----SAGNHAQGVAYHAQRLGIPATIVMPRFTPTVKVERT---RGFGAEVVLH------- 123
Query: 216 GA-LDKAEEIVLNTPNAYMFQQFDNMANLKIH-FD---------STGPEIWEDTLGCVDI 264
G LD+A +A + + + +H +D + E+ ED +D
Sbjct: 124 GETLDEARA------HARELAEEEGLT--FVHPYDDPAVIAGQGTVALEMLEDA-PDLDT 174
Query: 265 FVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPA 297
V IG GG I+G K + +I+++GV+
Sbjct: 175 LVVPIGGGGLISGMATAAKALKPDIEIIGVQTE 207
>gnl|CDD|215524 PLN02970, PLN02970, serine racemase.
Length = 328
Score = 35.4 bits (82), Expect = 0.035
Identities = 19/92 (20%), Positives = 34/92 (36%), Gaps = 21/92 (22%)
Query: 261 CVDIFVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPAERS-VISGENAGYVPSILDVQ-- 317
+D+ + I GG I+G K + IK++ EP + AG + ++
Sbjct: 175 ELDVIIVPISGGGLISGIALAAKAIKPSIKIIAAEPKGADDAAQSKAAGEIITLPVTNTI 234
Query: 318 ------------------LLDEVIKVTNDEAV 331
L+D+VI V + E +
Sbjct: 235 ADGLRASLGDLTWPVVRDLVDDVITVDDKEII 266
>gnl|CDD|176225 cd08264, Zn_ADH_like2, Alcohol dehydrogenases of the MDR family.
This group resembles the zinc-dependent alcohol
dehydrogenases of the medium chain dehydrogenase family.
However, this subgroup does not contain the
characteristic catalytic zinc site. Also, it contains an
atypical structural zinc-binding pattern:
DxxCxxCxxxxxxxC. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 35.4 bits (82), Expect = 0.036
Identities = 48/200 (24%), Positives = 84/200 (42%), Gaps = 60/200 (30%)
Query: 152 ITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPE 211
+ PG+TV+V +GNTG+ +A + G ++I + R+ L+ FGA+ ++ E
Sbjct: 160 LGPGETVVVFGASGNTGIFAVQLAKMMGAEVIA-------VSRKDWLKEFGADEVVDYDE 212
Query: 212 KGLRGALDKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGT 271
+K +EI MA++ I +S G W+ +L +G
Sbjct: 213 -----VEEKVKEIT-------------KMADVVI--NSLGSSFWDLSLS-------VLGR 245
Query: 272 GGTI----TGTGRFLK-----MMNKEIKVVGVEPAERSVISGENAGYVPSILDVQLLDEV 322
GG + T TG +K + +K+I ++G R +LL E+
Sbjct: 246 GGRLVTFGTLTGGEVKLDLSDLYSKQISIIGSTGGTRK----------------ELL-EL 288
Query: 323 IKVTNDEAVNMARRLALEEG 342
+K+ D V + + LEE
Sbjct: 289 VKIAKDLKVKVWKTFKLEEA 308
>gnl|CDD|107207 cd06446, Trp-synth_B, Tryptophan synthase-beta: Trptophan synthase
is a bifunctional enzyme that catalyses the last two
steps in the biosynthesis of L-tryptophan via its alpha
and beta reactions. In the alpha reaction, indole
3-glycerol phosphate is cleaved reversibly to
glyceraldehyde 3-phosphate and indole at the active site
of the alpha subunit. In the beta reaction, indole
undergoes a PLP-dependent reaction with L-serine to form
L-tryptophan at the active site of the beta subunit.
Members of this CD, Trp-synth_B, are found in all three
major phylogenetic divisions.
Length = 365
Score = 35.2 bits (82), Expect = 0.039
Identities = 43/175 (24%), Positives = 74/175 (42%), Gaps = 26/175 (14%)
Query: 155 GKTVLVEPT-TGNTGLGIAFVAAVKGYKLIVTMPASTNLER----RILLRAFGAEII-LT 208
GK ++ T G G+ A A+ G + + M A ++ER + GAE++ +
Sbjct: 81 GKKRVIAETGAGQHGVATATACALFGLECEIYMGA-VDVERQPLNVFRMELLGAEVVPVP 139
Query: 209 DPEKGLRGALDKA-EEIVLNTPNA-YMF------QQFDNMANLKIHFDST-GPE----IW 255
L+ A+ +A + V N + Y+ + NM F S G E I
Sbjct: 140 SGSGTLKDAISEAIRDWVTNVEDTHYLLGSVVGPHPYPNMV---RDFQSVIGEEAKKQIL 196
Query: 256 EDTLGCVDIFVAAIGTGGTITG-TGRFLKMMNKEIKVVGVEPAERSVISGENAGY 309
E D+ +A +G G G F+ +K++K++GVE + +G +A Y
Sbjct: 197 EKEGELPDVVIACVGGGSNAAGLFYPFIN--DKDVKLIGVEAGGCGLETGGHAAY 249
>gnl|CDD|211710 TIGR02035, D_Ser_am_lyase, D-serine ammonia-lyase. This family
consists of D-serine ammonia-lyase (EC 4.3.1.18), a
pyridoxal-phosphate enzyme that converts D-serine to
pyruvate and NH3. This enzyme is also called D-serine
dehydratase and D-serine deaminase and was previously
designated EC 4.2.1.14. It is homologous to an enzyme
that acts on threonine and may itself act weakly on
threonine [Energy metabolism, Amino acids and amines].
Length = 431
Score = 34.8 bits (80), Expect = 0.052
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
+TGN GL I ++A G+++ V M A ++ LR+ G ++
Sbjct: 159 STGNLGLSIGIISAALGFQVTVHMSADARQWKKDKLRSHGVTVV 202
>gnl|CDD|176193 cd08231, MDR_TM0436_like, Hypothetical enzyme TM0436 resembles the
zinc-dependent alcohol dehydrogenases (ADH). This group
contains the hypothetical TM0436 alcohol dehydrogenase
from Thermotoga maritima, proteins annotated as
5-exo-alcohol dehydrogenase, and other members of the
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
MDR, which contains the zinc-dependent alcohol
dehydrogenase (ADH-Zn) and related proteins, is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. MDRs display
a broad range of activities and are distinguished from
the smaller short chain dehydrogenases (~ 250 amino
acids vs. the ~ 350 amino acids of the MDR). The MDR
proteins have 2 domains: a C-terminal NAD(P)
binding-Rossmann fold domain of a beta-alpha form and an
N-terminal catalytic domain with distant homology to
GroES. The MDR group contains a host of activities,
including the founding alcohol dehydrogenase (ADH),
quinone reductase, sorbitol dehydrogenase, formaldehyde
dehydrogenase, butanediol DH, ketose reductase, cinnamyl
reductase, and numerous others. The zinc-dependent
alcohol dehydrogenases (ADHs) catalyze the
NAD(P)(H)-dependent interconversion of alcohols to
aldehydes or ketones. Active site zinc has a catalytic
role, while structural zinc aids in stability.
Length = 361
Score = 34.9 bits (81), Expect = 0.054
Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 7/81 (8%)
Query: 147 EESGDITPGKTVLVEPTTGNTGLGI--AFVAAVKGYKLIVTMPASTNLERRILLRAFGAE 204
+ +G + G TV+V G LG+ A + G + ++ + S ER L R FGA+
Sbjct: 170 DRAGPVGAGDTVVV---QGAGPLGLYAVAAAKLAGARRVIVIDGSP--ERLELAREFGAD 224
Query: 205 IILTDPEKGLRGALDKAEEIV 225
+ E +I
Sbjct: 225 ATIDIDELPDPQRRAIVRDIT 245
>gnl|CDD|176205 cd08243, quinone_oxidoreductase_like_1, Quinone oxidoreductase
(QOR). NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 320
Score = 34.5 bits (80), Expect = 0.072
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 5/62 (8%)
Query: 151 DITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPAST-NLERRILLRAFGAEIILTD 209
+ PG T+L+ G + +G+A + K VT A+T + ER LL+ GA+ ++ D
Sbjct: 139 GLQPGDTLLIR--GGTSSVGLAALKLAKALGATVT--ATTRSPERAALLKELGADEVVID 194
Query: 210 PE 211
Sbjct: 195 DG 196
>gnl|CDD|180539 PRK06352, PRK06352, threonine synthase; Validated.
Length = 351
Score = 34.3 bits (78), Expect = 0.082
Identities = 57/271 (21%), Positives = 109/271 (40%), Gaps = 42/271 (15%)
Query: 103 GRTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEP 162
G TP++ L +++ + K E + P S KDR + A+E G ++
Sbjct: 27 GNTPLIPLPNLSKELGVTLYGKYEGLNPTGSFKDRGMVMAVAKAKEE-----GAEAVICA 81
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMP----ASTNLERRILLRAFGAEIILTDPEKGLRGAL 218
+TGNT A A G K + +P A L + ++ +GA+II ++G
Sbjct: 82 STGNTSAAAAAYATRAGLKAYIVIPEGKVALGKLAQAVM---YGADII------SIQGNF 132
Query: 219 DKAEEIVLNTPNAYMFQQFDNMANLKIHFDSTGP-EIWEDTLGCVDIFVAAIGTGGTITG 277
D+A + V +++ ++ T EI E D+ +G G I+
Sbjct: 133 DEALKSVRELAETEAVTLVNSVNPYRLEGQKTAAFEICEQLGSAPDVLAIPVGNAGNISA 192
Query: 278 TGRFLKMMNKEI-----KVVGVEP-AERSVISG---ENAGYVPSILDV----------QL 318
+ K N+ ++ G E +++ G +N + + + +
Sbjct: 193 YWKGFKEWNEAKASGLPRMHGFEAEGAAAIVQGKPIDNPETIATAIRIGNPASWGLAEAA 252
Query: 319 LDE----VIKVTNDEAVNMARRLALEEGLLV 345
DE + VT+DE VN +++A ++G+ +
Sbjct: 253 RDESGGYIHSVTDDEIVNAYKKIAAQDGVFI 283
>gnl|CDD|225590 COG3048, DsdA, D-serine dehydratase [Amino acid transport and
metabolism].
Length = 443
Score = 34.4 bits (79), Expect = 0.086
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 163 TTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
+TGN GL I ++A G+K+ V M A ++ LR+ G ++
Sbjct: 167 STGNLGLSIGIMSAALGFKVTVHMSADARAWKKDKLRSHGVTVV 210
>gnl|CDD|176188 cd05285, sorbitol_DH, Sorbitol dehydrogenase. Sorbitol and aldose
reductase are NAD(+) binding proteins of the polyol
pathway, which interconverts glucose and fructose.
Sorbitol dehydrogenase is tetrameric and has a single
catalytic zinc per subunit. Aldose reductase catalyzes
the NADP(H)-dependent conversion of glucose to sorbital,
and SDH uses NAD(H) in the conversion of sorbitol to
fructose. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 343
Score = 34.0 bits (79), Expect = 0.098
Identities = 37/164 (22%), Positives = 62/164 (37%), Gaps = 52/164 (31%)
Query: 150 GDITPGKTVLVEPTTGNTGLG-IAFVAAVKGYKLIVTMPASTNLERRILLRAFGA-EIIL 207
+ PG TVLV G G I + A + +AFGA ++++
Sbjct: 158 AGVRPGDTVLV------FGAGPIGLLTA-------------------AVAKAFGATKVVV 192
Query: 208 TD--PEKGLRGALDKAEEI----VLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLG- 260
TD P + L+ A+E+ +N + + +A L GP++ + G
Sbjct: 193 TDIDPSR-----LEFAKELGATHTVNVRTEDTPESAEKIAEL---LGGKGPDVVIECTGA 244
Query: 261 --CVDIFVAAIGTGGTI--TGTGR------FLKMMNKEIKVVGV 294
C+ + A GGT+ G G+ +EI + GV
Sbjct: 245 ESCIQTAIYATRPGGTVVLVGMGKPEVTLPLSAASLREIDIRGV 288
>gnl|CDD|107208 cd06447, D-Ser-dehyd, D-Serine dehydratase is a pyridoxal phosphate
(PLP)-dependent enzyme which catalyzes the conversion of
L- or D-serine to pyruvate and ammonia. D-serine
dehydratase serves as a detoxifying enzyme in most E.
coli strains where D-serine is a competitive antagonist
of beta-alanine in the biosynthetic pathway to
pentothenate and coenzyme A. D-serine dehydratase is
different from other pyridoxal-5'-phosphate-dependent
enzymes in that it catalyzes alpha, beta-elimination
reactions on amino acids.
Length = 404
Score = 33.9 bits (78), Expect = 0.13
Identities = 27/95 (28%), Positives = 40/95 (42%), Gaps = 21/95 (22%)
Query: 133 SVKDRIG-YSMITDAE----ESGDITPGK--TVLVEPT--------------TGNTGLGI 171
S+K R G Y ++ AE E G +T + L TGN GL I
Sbjct: 90 SIKARGGIYEVLKHAEKLALEHGLLTLEDDYSKLASEKFRKLFSQYSIAVGSTGNLGLSI 149
Query: 172 AFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
+AA G+K+ V M A ++ LR+ G ++
Sbjct: 150 GIMAAALGFKVTVHMSADAKQWKKDKLRSKGVTVV 184
>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This
group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 337
Score = 32.9 bits (76), Expect = 0.19
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 150 GDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIIL 207
+T G TVLV G GLG+ VA +G ++IV + ER R GA+ +
Sbjct: 155 AGVTAGDTVLVV-GAGPIGLGVIQVAKARGARVIVV---DIDDERLEFARELGADDTI 208
>gnl|CDD|163556 TIGR03844, cysteate_syn, cysteate synthase. Members of this family
are cysteate synthase, an enzyme of alternate pathway to
sulfopyruvate, a precursor of coenzyme M [Biosynthesis
of cofactors, prosthetic groups, and carriers, Other,
Energy metabolism, Methanogenesis].
Length = 398
Score = 32.4 bits (74), Expect = 0.32
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPAS 189
G LV + GNTG A V+A+ G +I+ +P S
Sbjct: 116 GGKTLVVASAGNTGRAFAEVSAITGQPVILVVPKS 150
>gnl|CDD|182663 PRK10707, PRK10707, putative NUDIX hydrolase; Provisional.
Length = 190
Score = 31.5 bits (72), Expect = 0.36
Identities = 29/102 (28%), Positives = 39/102 (38%), Gaps = 21/102 (20%)
Query: 15 QLLPPHPLNIASQKRHRFARFKTSSLSSI-----NGALATRRRI-LPIVASAKA--GAAA 66
QL P P +R + L I L T+R I L A A G A
Sbjct: 16 QLQRPQPNRETLNQRQ------AAVLIPIVRRPQPTLLLTQRSIHLRKHAGQVAFPGGAV 69
Query: 67 SSSSSSLYATSTREIEKEEGNDFHGVNIAEDVTQLIGRTPMV 108
+ +SL AT+ RE ++E V I ++IG P V
Sbjct: 70 DPTDASLIATALREAQEE-------VAIPPSAVEVIGVLPPV 104
>gnl|CDD|176218 cd08256, Zn_ADH2, Alcohol dehydrogenases of the MDR family. This
group has the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenases of the MDR family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 350
Score = 32.4 bits (74), Expect = 0.37
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 9/79 (11%)
Query: 146 AEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEI 205
A + +I V++ G GLG+ A +K K ++ + ER L R FGA++
Sbjct: 166 AVDRANIKFDDVVVLA-GAGPLGLGMIGAARLKNPKKLIVLDLKD--ERLALARKFGADV 222
Query: 206 ILTDPEKGLRGALDKAEEI 224
+L PE D E+I
Sbjct: 223 VLNPPEV------DVVEKI 235
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent 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. 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 = 328
Score = 31.8 bits (73), Expect = 0.45
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 5/74 (6%)
Query: 148 ESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGA-EII 206
E + PG +VL+ + + GL +A G +I T + E+R L A GA +I
Sbjct: 138 ELAGLRPGDSVLITAASSSVGLAAIQIANAAGATVIAT---TRTSEKRDALLALGAAHVI 194
Query: 207 LTDPEKGLRGALDK 220
+TD E L + +
Sbjct: 195 VTDEE-DLVAEVLR 207
>gnl|CDD|172537 PRK14045, PRK14045, 1-aminocyclopropane-1-carboxylate deaminase;
Provisional.
Length = 329
Score = 31.4 bits (71), Expect = 0.65
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 262 VDIFVAAIGTGGTITGTGRFLKMMNKEIKVVGV 294
D V A+G+GGT+ G L ++N E +VVG+
Sbjct: 185 FDSIVVAVGSGGTLAGLSLGLAILNAEWRVVGI 217
>gnl|CDD|236339 PRK08813, PRK08813, threonine dehydratase; Provisional.
Length = 349
Score = 31.1 bits (70), Expect = 0.71
Identities = 57/243 (23%), Positives = 96/243 (39%), Gaps = 36/243 (14%)
Query: 124 KLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLI 183
KLE+++ S K R + + E GD P ++ + GN G+A+ A G + I
Sbjct: 53 KLENLQRTGSYKVRGALNALLAGLERGDERP----VICASAGNHAQGVAWSAYRLGVQAI 108
Query: 184 VTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDKAEEIV--LNTPNAYMF-QQFDNM 240
MP + + +GA + + + D+A L N Y F FD+
Sbjct: 109 TVMPHGAPQTKIAGVAHWGATV------RQHGNSYDEAYAFARELADQNGYRFLSAFDD- 161
Query: 241 ANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGRFLKMMNKEI---KVVGVEPA 297
++ + G E+ D+ + IG GG +G LK + +V GV+
Sbjct: 162 PDVIAGQGTVGIEL---AAHAPDVVIVPIGGGGLASGVALALKSQGVRVVGAQVEGVDSM 218
Query: 298 ERSV----------------ISGENAGYVPSILDVQLLDEVIKVTNDEAVNMARRLALEE 341
R++ + + G++ L LLD+V+ V E RLALEE
Sbjct: 219 ARAIRGDLREIAPVATLADGVKVKIPGFLTRRLCSSLLDDVVIVREAELRETLVRLALEE 278
Query: 342 GLL 344
++
Sbjct: 279 HVI 281
>gnl|CDD|198341 cd10308, GST_C_eEF1b_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of eukaryotic
translation Elongation Factor 1 beta. Glutathione
S-transferase (GST) C-terminal domain family, eukaryotic
translation Elongation Factor 1 beta (eEF1b) subfamily;
eEF1b is a component of the eukaryotic translation
elongation factor-1 (EF1) complex which plays a central
role in the elongation cycle during protein
biosynthesis. EF1 consists of two functionally distinct
units, EF1A and EF1B. EF1A catalyzes the GTP-dependent
binding of aminoacyl-tRNA to the ribosomal A site
concomitant with the hydrolysis of GTP. The resulting
inactive EF1A:GDP complex is recycled to the active GTP
form by the guanine-nucleotide exchange factor EF1B, a
complex composed of at least two subunits, alpha and
gamma. Metazoan EFB1 contain a third subunit, beta.
eEF1b contains a GST_C-like alpha helical domain at the
N-terminal region and a C-terminal guanine nucleotide
exchange domain. The GST_C-like domain likely functions
as a protein-protein interaction domain, similar to the
function of the GST_C-like domains of EF1Bgamma and
various aminoacyl-tRNA synthetases (aaRSs) from higher
eukaryotes.
Length = 82
Score = 28.9 bits (65), Expect = 0.83
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 297 AERSVISGENAGYVPSILDVQLLDEVIKVTNDEA-VNMAR 335
A+RS ISG Y PS DV++ D++ K + ++AR
Sbjct: 39 ADRSYISG----YSPSQADVEVFDKLKKAPDATKFPHLAR 74
>gnl|CDD|233403 TIGR01415, trpB_rel, pyridoxal-phosphate dependent TrpB-like
enzyme. This model represents a family of
pyridoxal-phosphate dependent enzyme (pfam00291) closely
related to the beta subunit of tryptophan synthase
(TIGR00263). However, the only case in which a member of
this family replaces a member of TIGR00263 is in
Sulfolobus species which contain two sequences which hit
this model, one of which is proximal to the alpha
subunit. In every other case so far, either the species
appears not to make tryptophan (there is no trp synthase
alpha subunit), or a trp synthase beta subunit matching
TIGR00263 is also found [Unknown function, Enzymes of
unknown specificity].
Length = 419
Score = 30.1 bits (68), Expect = 1.7
Identities = 48/239 (20%), Positives = 81/239 (33%), Gaps = 50/239 (20%)
Query: 97 DVTQLIGR-TPMVYLNKVTE--GCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDIT 153
IGR TP++ + E G + K ES+ P S K + A+ G
Sbjct: 60 KRYAQIGRPTPLIRAKGLEELLGTPARIYYKYESVSPTGSHKINTAIAQAYYAKIEG--- 116
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPAST---NLERRILLRAFGAEIILT-- 208
K ++ E G G ++ A+ G + V M + R+ L+ +GAE+I +
Sbjct: 117 -AKRLVTETGAGQWGSALSLAGALFGLECKVFMVRVSFNQKPYRKYLMELYGAEVIPSPS 175
Query: 209 ------------DPEK--GLRGALDKAEEIVLNTPNAY-----------MFQQFDNMANL 243
DP+ L A+ +A E L+ + + Q +
Sbjct: 176 EFTEFGREVLKEDPDHPGSLGIAISEAIEYALSDEDTKYSLGSVLNHVLLHQTVIGLEAK 235
Query: 244 KIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTG-RFLKMM---NKEIKVVGVEPAE 298
K E ED D+ + +G G G F+ + + + EP
Sbjct: 236 K-----QMEEAGEDP----DVIIGCVGGGSNFAGLAFPFVADKLSGKIDRRFIAAEPKA 285
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR acts in the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 29.4 bits (67), Expect = 2.7
Identities = 24/71 (33%), Positives = 37/71 (52%), Gaps = 7/71 (9%)
Query: 150 GDITPGKTVLVEPTTGNTGLGIAFV--AAVKGYKLIVTMPASTNLERRILLRAFGAEIIL 207
+ PG+TVLV G G+G+A V A G ++I AS+ E+ L RA GA+ ++
Sbjct: 135 ARLQPGETVLVLGAAG--GVGLAAVQLAKALGARVIAA--ASSE-EKLALARALGADHVI 189
Query: 208 TDPEKGLRGAL 218
+ LR +
Sbjct: 190 DYRDPDLRERV 200
>gnl|CDD|130646 TIGR01584, citF, citrate lyase, alpha subunit. This is a model of
the alpha subunit of the holoenzyme citrate lyase (EC
4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC
4.1.3.34), and acyl carrier protein subunits in a
stoichiometric relationship of 6:6:6. Citrate lyase is
an enzyme which converts citrate to oxaloacetate. In
bacteria, this reaction is involved in citrate
fermentation. The alpha subunit catalyzes the reaction
Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The
seed contains an experimentally characterized member
from Lactococcus lactis subsp. lactis. The model covers
both Gram positive and Gram negative bacteria. It is
quite robust with queries scoring either quite well or
quite poorly against the model. There are currently no
hits in between the noise cutoff and trusted cutoff
[Energy metabolism, Fermentation].
Length = 492
Score = 29.4 bits (66), Expect = 3.0
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 3/61 (4%)
Query: 263 DIFVAAIGTGGTITGTGRFLK--MMNKEIKV-VGVEPAERSVISGENAGYVPSILDVQLL 319
D F GTGG RFLK M++ IK G+ + ++ G + + DVQ
Sbjct: 251 DGFSFQTGTGGAALAVTRFLKEKMIDHNIKASFGLGGITKQMVDLHEEGLIDKLFDVQSF 310
Query: 320 D 320
D
Sbjct: 311 D 311
>gnl|CDD|176213 cd08251, polyketide_synthase, polyketide synthase. Polyketide
synthases produce polyketides in step by step mechanism
that is similar to fatty acid synthesis. Enoyl reductase
reduces a double to single bond. Erythromycin is one
example of a polyketide generated by 3 complex enzymes
(megasynthases). 2-enoyl thioester reductase (ETR)
catalyzes the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H)-binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding.
Length = 303
Score = 28.9 bits (65), Expect = 3.4
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 143 ITDAEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFG 202
+ DA + G+ +L++ TG TGL +A +KG ++ T AS++ ++ L+ G
Sbjct: 109 VIDAFARAGLAKGEHILIQTATGGTGLMAVQLARLKGAEIYAT--ASSD-DKLEYLKQLG 165
>gnl|CDD|233960 TIGR02642, phage_xxxx, uncharacterized phage protein. This
uncharacterized protein is found in prophage regions of
Shewanella oneidensis MR-1, Vibrio vulnificus YJ016,
Yersinia pseudotuberculosis IP 32953, and Aeromonas
hydrophila ATCC7966. It appears to have regions of
sequence similarity to phage lambda antitermination
protein Q [Mobile and extrachromosomal element
functions, Prophage functions].
Length = 186
Score = 28.7 bits (64), Expect = 3.5
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 277 GTGRFLKMMNKEIKVVGVEPAERSVISGENAGYVPSILDVQLLDEVIKVTNDEAVNMARR 336
GTGRF + +K GV+ V+ V S+ +D + + +D A + RR
Sbjct: 123 GTGRFRPTVEDLLKSFGVDSGAAIVLKDNWPQVVTSVRAQ--VDALRRHESDAARVVERR 180
Query: 337 LALE 340
+ LE
Sbjct: 181 IRLE 184
>gnl|CDD|145416 pfam02252, PA28_beta, Proteasome activator pa28 beta subunit. PA28
activator complex (also known as 11s regulator of 20S
proteasome) is a ring shaped hexameric structure of
alternating alpha and beta subunits. This family
represents the beta subunit. The activator complex binds
to the 20S proteasome ana simulates peptidase activity
in and ATP-independent manner.
Length = 150
Score = 28.4 bits (64), Expect = 3.6
Identities = 10/22 (45%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 84 EEGNDFHGVNIAEDVTQLIGRT 105
E+GN+F GV+I E+V + + R
Sbjct: 44 EDGNNF-GVSIQEEVLEELTRV 64
>gnl|CDD|235096 PRK02991, PRK02991, D-serine dehydratase; Provisional.
Length = 441
Score = 29.1 bits (66), Expect = 3.8
Identities = 31/110 (28%), Positives = 48/110 (43%), Gaps = 22/110 (20%)
Query: 119 GNVAAKLESMEPCR-SVKDRIG-YSMITDAE----ESGDITPGK--TVLVEPT------- 163
G + K +S P S+K R G Y ++ AE E+G +T + L P
Sbjct: 98 GRLLLKKDSHLPISGSIKARGGIYEVLKHAEKLALEAGLLTLDDDYSKLASPEFRQFFSQ 157
Query: 164 -------TGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII 206
TGN GL I ++A G+K+ V M A ++ LR+ G ++
Sbjct: 158 YSIAVGSTGNLGLSIGIMSAALGFKVTVHMSADARQWKKDKLRSHGVTVV 207
>gnl|CDD|183851 PRK13028, PRK13028, tryptophan synthase subunit beta; Provisional.
Length = 402
Score = 29.1 bits (66), Expect = 4.2
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 9/49 (18%)
Query: 263 DIFVAAIGTG----GTITGTGRFLKMMNKEIKVVGVEPAERSVISGENA 307
D VA +G G G + FL ++ +++VGVEPA R + GE+A
Sbjct: 232 DAVVACVGGGSNAIGLFSA---FLD--DESVRLVGVEPAGRGLDLGEHA 275
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 29.1 bits (66), Expect = 4.3
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 9/64 (14%)
Query: 274 TITGTGRFLKMMNKEIKVVGVEPAERSVISGENA----GYVPSILDVQLLDEVIKVTNDE 329
I G RF+ ++V G ++ I+ +N G P I +D + + +
Sbjct: 111 VIRGEARFVD--PHTVEVTG---EDKETITADNIIIATGSRPRIPPGPGIDGARILDSSD 165
Query: 330 AVNM 333
A+ +
Sbjct: 166 ALFL 169
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 28.8 bits (65), Expect = 4.3
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDP 210
K +V + GL A KGY +I TM N E++ L + ++ L
Sbjct: 3 KKIAIVTGASSGFGLLTTLELAKKGYLVIATM---RNPEKQENLLSQATQLNLQQN 55
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also an active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 235
Score = 28.5 bits (64), Expect = 4.3
Identities = 28/107 (26%), Positives = 47/107 (43%), Gaps = 18/107 (16%)
Query: 155 GKTVLVEPTTGNTGLGIAFV------AAVKGYKLIVTMPASTNLERRILLRAFGAEIILT 208
KTVLV T N G+G AFV A K Y + ++ +L + + + +T
Sbjct: 3 DKTVLV--TGANRGIGKAFVESLLAHGAKKVYAAVRDPGSAAHLVAKYGDKVVPLRLDVT 60
Query: 209 DPEKGLRGALDKAE--EIVLN-----TPNAYMFQQFDNMANLKIHFD 248
DPE ++ A +A+ ++V+N P + + + LK D
Sbjct: 61 DPES-IKAAAAQAKDVDVVINNAGVLKPATLLEEGA--LEALKQEMD 104
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 28.4 bits (64), Expect = 5.0
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 156 KTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEII---LTDPE 211
K VL+ + GL +A A +GY++I T LE L E++ +TD E
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELLNDNLEVLELDVTDEE 59
>gnl|CDD|176235 cd08274, MDR9, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent 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. 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 = 350
Score = 28.4 bits (64), Expect = 5.3
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 148 ESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIIL 207
E + G+TVLV +G G + +A +G +I A + +RA GA+ ++
Sbjct: 171 ERAGVGAGETVLVTGASGGVGSALVQLAKRRGAIVI----AVAGAAKEEAVRALGADTVI 226
Query: 208 TDPEKGLRGALDKAEEIVLN 227
LR A A+ L
Sbjct: 227 ------LRDAPLLADAKALG 240
>gnl|CDD|171472 PRK12403, PRK12403, putative aminotransferase; Provisional.
Length = 460
Score = 28.7 bits (64), Expect = 5.8
Identities = 45/170 (26%), Positives = 64/170 (37%), Gaps = 27/170 (15%)
Query: 154 PGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTM----PASTNLERRILLRAFGAEIILTD 209
P K +++ G G +A A+ G K + M P +++ A G E LT
Sbjct: 145 PQKKIMIGRWNGYHGSTLA-ATALGGMKFMHEMGGLIPDVAHIDEPYWY-ANGGE--LTP 200
Query: 210 PEKGLRGALDKAEEIV-LNTPN--AYMFQQFDNMANLKIHFDSTGPEIWE-----DTLGC 261
E G R AL E+I+ L N ++ + F + +S PEI D L C
Sbjct: 201 AEFGRRAALQLEEKILELGAENVAGFVAEPFQGAGGMIFPPESYWPEIQRICRQYDVLLC 260
Query: 262 VDIFVAAIGTGGTITGTGRFLKMMNKEIKVVGVEPAERSVISGENAGYVP 311
D + G G F G EP S+ G +GYVP
Sbjct: 261 ADEVIGGFGRTGEWFAHEHF-----------GFEPDTLSIAKGLTSGYVP 299
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 28.3 bits (64), Expect = 6.0
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 147 EESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPAST-NLERRILLRAFGAEI 205
E G + G+TVL+ G G +A +G ++I T AS N + LR+ GA+
Sbjct: 137 FELGGLKAGQTVLIHGAAGGVGSFAVQLAKARGARVIAT--ASAANAD---FLRSLGADE 191
Query: 206 IL 207
++
Sbjct: 192 VI 193
>gnl|CDD|212492 cd05327, retinol-DH_like_SDR_c_like, retinol dehydrogenase
(retinol-DH), Light dependent Protochlorophyllide
(Pchlide) OxidoReductase (LPOR) and related proteins,
classical (c) SDRs. Classical SDR subgroup containing
retinol-DHs, LPORs, and related proteins. Retinol is
processed by a medium chain alcohol dehydrogenase
followed by retinol-DHs. Pchlide reductases act in
chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. This subgroup includes the human proteins: retinol
dehydrogenase -12, -13 ,and -14, dehydrogenase/reductase
SDR family member (DHRS)-12 , -13 and -X (a DHRS on
chromosome X), and WWOX (WW domain-containing
oxidoreductase), as well as a Neurospora crassa SDR
encoded by the blue light inducible bli-4 gene. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 269
Score = 28.3 bits (64), Expect = 6.2
Identities = 22/82 (26%), Positives = 31/82 (37%), Gaps = 29/82 (35%)
Query: 155 GKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILT--DPEK 212
GK V++ T N+G+G A R L + GA +I+ + EK
Sbjct: 1 GKVVVI--TGANSGIG--KETA------------------RELAKR-GAHVIIACRNEEK 37
Query: 213 GLRGALDKAEEIVLNTPNAYMF 234
G A EI T NA +
Sbjct: 38 GEEA----AAEIKKETGNAKVE 55
>gnl|CDD|202716 pfam03646, FlaG, FlaG protein. Although important for flagella the
exact function of this protein is unknown.
Length = 107
Score = 26.8 bits (60), Expect = 6.7
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 11/67 (16%)
Query: 280 RFLKMMNKEIKVVGVEPAERSVISGENAGYVPSILDVQLLDEVIK-VTNDEAVNMARRLA 338
+FL+ +N ++ E + R V+ ++D + EVI+ + ++EA+++A +L
Sbjct: 48 KFLQSLNTNLEFSVDEDSGRVVVK---------VVDKET-GEVIRQIPSEEALDLAAKLR 97
Query: 339 LEEGLLV 345
GLL
Sbjct: 98 ELVGLLF 104
>gnl|CDD|223211 COG0133, TrpB, Tryptophan synthase beta chain [Amino acid transport
and metabolism].
Length = 396
Score = 28.3 bits (64), Expect = 6.9
Identities = 41/177 (23%), Positives = 79/177 (44%), Gaps = 34/177 (19%)
Query: 155 GKT-VLVEPTTGNTGLGIAFVAAVKGYKLIVTMPA------STNLERRILLRAFGAEII- 206
GKT ++ E G G+ A AA+ G + ++ M A + N+ R LL GAE++
Sbjct: 102 GKTRIIAETGAGQHGVATATAAALFGLECVIYMGAEDVERQALNVFRMRLL---GAEVVP 158
Query: 207 LTDPEKGLRGALDKA-EEIVLNTPNAY--------------MFQQFDNMANLKIHFDSTG 251
+T L+ A+++A + V N + + + + F ++ +
Sbjct: 159 VTSGSGTLKDAINEALRDWVTNVEDTHYLIGSAAGPHPYPTIVRDFQSVIG-----EEAK 213
Query: 252 PEIWEDTLGCVDIFVAAIGTGGTITGT-GRFLKMMNKEIKVVGVEPAERSVISGENA 307
+I E D VA +G G G F+ ++ ++++GVE A + + +G++A
Sbjct: 214 AQILEKEGRLPDAVVACVGGGSNAIGIFHPFID--DESVRLIGVEAAGKGIETGKHA 268
>gnl|CDD|131508 TIGR02455, TreS_stutzeri, trehalose synthase, Pseudomonas stutzeri
type. Trehalose synthase catalyzes a one-step
conversion of maltose to trehalose. This is an
alternative to the OtsAB and TreYZ pathways. This family
includes a characterized example from Pseudomonas
stutzeri plus very closely related sequences from other
Pseudomonads. Cutoff scores are set to find a more
distantly related sequence from Desulfovibrio vulgaris,
likely to be functionally equivalent, between trusted
and noise limits [Energy metabolism, Biosynthesis and
degradation of polysaccharides, Cellular processes,
Adaptations to atypical conditions].
Length = 688
Score = 28.4 bits (63), Expect = 7.6
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 275 ITGTGRFLKMMNKEIKVVGVEPA 297
+TG FL++M KE+ G++PA
Sbjct: 371 LTGDTEFLRLMLKEMHAFGIDPA 393
>gnl|CDD|143453 cd07135, ALDH_F14-YMR110C, Saccharomyces cerevisiae aldehyde
dehydrogenase family 14 and related proteins. Aldehyde
dehydrogenase family 14 (ALDH14), isolated mainly from
the mitochondrial outer membrane of Saccharomyces
cerevisiae (YMR110C) and most closely related to the
plant and animal ALDHs and fatty ALDHs family 3 members,
and similar fungal sequences, are present in this CD.
Length = 436
Score = 28.0 bits (63), Expect = 7.6
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 291 VVGVEPAERSVISGENAGYVPSILDVQLLDEVIKVTND 328
+V + S++S E G V I+ V LDE IKV N
Sbjct: 326 IVSDVSWDDSLMSEELFGPVLPIIKVDDLDEAIKVINS 363
>gnl|CDD|129652 TIGR00561, pntA, NAD(P) transhydrogenase, alpha subunit. This
integral membrane protein is the alpha subunit of alpha
2 beta 2 tetramer that couples the proton transport
across the membrane to the reversible transfer of
hydride ion equivalents between NAD and NADP. An
alternate name is pyridine nucleotide transhydrogenase
alpha subunit. The N-terminal region is homologous to
alanine dehydrogenase. In some species, such as
Rhodospirillum rubrum, the alpha chain is replaced by
two shorter chains, both with some homology to the
full-length alpha chain modeled here. These score below
the trusted cutoff [Energy metabolism, Electron
transport].
Length = 511
Score = 28.0 bits (62), Expect = 7.9
Identities = 14/39 (35%), Positives = 16/39 (41%)
Query: 249 STGPEIWEDTLGCVDIFVAAIGTGGTITGTGRFLKMMNK 287
S LG + I VA+I G T R LKM K
Sbjct: 472 SQPLNSPTTILGFIAILVASINIFGGFLVTQRMLKMFRK 510
>gnl|CDD|176181 cd05278, FDH_like, Formaldehyde dehydrogenases. Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Formaldehyde dehydrogenase (aka ADH3) may be
the ancestral form of alcohol dehydrogenase, which
evolved to detoxify formaldehyde. This CD contains
glutathione dependant FDH, glutathione independent FDH,
and related alcohol dehydrogenases. FDH converts
formaldehyde and NAD(P) to formate and NAD(P)H. The
initial step in this process the spontaneous formation
of a S-(hydroxymethyl)glutathione adduct from
formaldehyde and glutathione, followed by FDH-mediated
oxidation (and detoxification) of the adduct to
S-formylglutathione. Unlike typical FDH, Pseudomonas
putida aldehyde-dismutating FDH (PFDH) is
glutathione-independent. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 347
Score = 28.0 bits (63), Expect = 8.0
Identities = 24/79 (30%), Positives = 34/79 (43%), Gaps = 11/79 (13%)
Query: 142 MITD-------AEESGDITPGKTVLVEPTTGNTGLGIAFVAAVKGYKLIVTMPASTNLER 194
M++D E I PG TV V G GL A + G I+ + +N ER
Sbjct: 148 MLSDILPTGFHGAELAGIKPGSTVAV-IGAGPVGLCAVAGARLLGAARIIAV--DSNPER 204
Query: 195 RILLRAFGAEIILTDPEKG 213
L + GA I+ +P+ G
Sbjct: 205 LDLAKEAGATDII-NPKNG 222
>gnl|CDD|179673 PRK03910, PRK03910, D-cysteine desulfhydrase; Validated.
Length = 331
Score = 27.9 bits (63), Expect = 8.6
Identities = 43/199 (21%), Positives = 63/199 (31%), Gaps = 77/199 (38%)
Query: 195 RILLRAFGAEIILTDPE----------------KGLR------------GAL---DKAEE 223
+L FGAEI + +G R GAL A E
Sbjct: 113 VLLDDLFGAEIHVVPAGTDMDAQLEELAEELRAQGRRPYVIPVGGSNALGALGYVACALE 172
Query: 224 IVLNTPNAYMFQQFDNMANLKIHFDSTGPEIWEDTLGCVDIFVAAIGTGGTITGTGRFLK 283
I QQ + FD+ V A G+GGT G L
Sbjct: 173 IA---------QQLAEG---GVDFDA---------------VVVASGSGGTHAGLAAGLA 205
Query: 284 MMNKEIKVVGV--------------EPAERSVISGENAGYVPSILDVQLLDEVI----KV 325
+ +I V+GV + A+ + +P D++L D+ + V
Sbjct: 206 ALGPDIPVIGVTVSRSAAEQEPKVAKLAQATAELLGLPTEIPR-ADIRLWDDYVGPGYGV 264
Query: 326 TNDEAVNMARRLALEEGLL 344
DE + + LA EG+L
Sbjct: 265 PTDEMLEAVKLLARTEGIL 283
>gnl|CDD|236025 PRK07476, eutB, threonine dehydratase; Provisional.
Length = 322
Score = 27.6 bits (62), Expect = 8.8
Identities = 63/267 (23%), Positives = 101/267 (37%), Gaps = 35/267 (13%)
Query: 104 RTPMVYLNKVTEGCVGNVAAKLESMEPCRSVKDRIGYSMITDAEESGDITPGKTVLVEPT 163
RTP+V ++ V KLE+++P S K R + + G +V +
Sbjct: 19 RTPLVASASLSARAGVPVWLKLETLQPTGSFKLRGATNALLSLSAQE-RARG---VVTAS 74
Query: 164 TGNTGLGIAFVAAVKGYKLIVTMPASTNLERRILLRAFGAEIILTDPEKGLRGALDKAEE 223
TGN G +A+ A G + + M + +RA GAE+ + + A + E
Sbjct: 75 TGNHGRALAYAARALGIRATICMSRLVPANKVDAIRALGAEVRIVG--RSQDDAQAEVER 132
Query: 224 IVLNTPNAYMFQQFDNMANLKIHFDST-GPEIWEDTLGCVDIFVAAIGTGGTITGTGRFL 282
+V + FD+ I T G EI E L V + + GG +G +
Sbjct: 133 LVREEGLTMV-PPFDDPR--IIAGQGTIGLEILEA-LPDVATVLVPLSGGGLASGVAAAV 188
Query: 283 KMMNKEIKVVGVEPA-----ERSVISGE--NAGYVPSILDV-----------------QL 318
K + I+V+GV S+ +G VP++ D L
Sbjct: 189 KAIRPAIRVIGVSMERGAAMHASLAAGRPVQVEEVPTLADSLGGGIGLDNRYTFAMCRAL 248
Query: 319 LDEVIKVTNDEAVNMARRLALEEGLLV 345
LD+V+ + E R EE L+V
Sbjct: 249 LDDVVLLDEAEIAAGIRHAYREERLVV 275
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
0.317 0.133 0.369
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,637,507
Number of extensions: 1740617
Number of successful extensions: 2080
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1996
Number of HSP's successfully gapped: 133
Length of query: 347
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 249
Effective length of database: 6,590,910
Effective search space: 1641136590
Effective search space used: 1641136590
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)