RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 028372
(210 letters)
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 333 bits (856), Expect = e-116
Identities = 146/199 (73%), Positives = 174/199 (87%)
Query: 6 AIKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLI 65
+I +DVTELIG TP+VYLNNVVDGCVARIAAKLE MEPCSSVKDRI YSMI DAE+KGLI
Sbjct: 4 SIAKDVTELIGKTPLVYLNNVVDGCVARIAAKLEMMEPCSSVKDRIGYSMITDAEEKGLI 63
Query: 66 TPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSAL 125
PG++ LIE TSGNTG+GLAF+AAA+GY LII MP++ S+ERRI+L A GAE++L D A
Sbjct: 64 KPGESVLIEPTSGNTGIGLAFMAAAKGYKLIITMPASMSLERRIILLAFGAELVLTDPAK 123
Query: 126 RFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTG 185
+ ++K EEIL KTP+ Y+L+QFENPANPKIHYETTGPEIW+ +GGKVDAF+SGIGTG
Sbjct: 124 GMKGAVQKAEEILAKTPNSYILQQFENPANPKIHYETTGPEIWKGTGGKVDAFVSGIGTG 183
Query: 186 GTVTGAGRFLKENNPDIKV 204
GT+TGAG++LKE NPDIK+
Sbjct: 184 GTITGAGKYLKEQNPDIKL 202
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 327 bits (839), Expect = e-114
Identities = 155/204 (75%), Positives = 176/204 (86%)
Query: 1 MEDNNAIKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAE 60
MED IK DVTELIGNTPMVYLNN+VDGCVARIAAKLE MEPCSSVKDRIAYSMIKDAE
Sbjct: 1 MEDRCLIKNDVTELIGNTPMVYLNNIVDGCVARIAAKLEMMEPCSSVKDRIAYSMIKDAE 60
Query: 61 DKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIIL 120
DKGLITPGK+TLIE T+GNTG+GLA I AARGY +I+VMPST S+ERRI+LRALGAE+ L
Sbjct: 61 DKGLITPGKSTLIEATAGNTGIGLACIGAARGYKVILVMPSTMSLERRIILRALGAEVHL 120
Query: 121 ADSALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFIS 180
D ++ + +LEK EEIL KTP GY+ +QFENPANP+IHY TTGPEIW+DS GKVD ++
Sbjct: 121 TDQSIGLKGMLEKAEEILSKTPGGYIPQQFENPANPEIHYRTTGPEIWRDSAGKVDILVA 180
Query: 181 GIGTGGTVTGAGRFLKENNPDIKV 204
G+GTGGT TG G+FLKE N DIKV
Sbjct: 181 GVGTGGTATGVGKFLKEKNKDIKV 204
>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 = 291 bits (748), Expect = e-100
Identities = 113/195 (57%), Positives = 148/195 (75%), Gaps = 1/195 (0%)
Query: 11 VTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKT 70
+ ELIGNTP+V LN + GC AR+ AKLE P SVKDRIA SMI+DAE +GL+ PG
Sbjct: 1 IEELIGNTPLVRLNRLAPGCDARVLAKLEGRNPSGSVKDRIALSMIEDAEKRGLLKPG-D 59
Query: 71 TLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEI 130
T+IE TSGNTG+ LA +AAA+GY LI+ MP T S+ERR +LRA GAE+IL + +
Sbjct: 60 TIIEATSGNTGIALAMVAAAKGYKLILTMPETMSLERRKLLRAYGAELILTPAEEGMKGA 119
Query: 131 LEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTG 190
++K EE+ +T +L QFENPANP+ HY+TTGPEIW+D+ G++D F++G+GTGGT+TG
Sbjct: 120 IDKAEELAAETNKYVMLDQFENPANPEAHYKTTGPEIWRDTDGRIDHFVAGVGTGGTITG 179
Query: 191 AGRFLKENNPDIKVV 205
GR+LKE NP+IK+V
Sbjct: 180 VGRYLKEQNPNIKIV 194
>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 = 281 bits (721), Expect = 4e-96
Identities = 112/196 (57%), Positives = 147/196 (75%), Gaps = 3/196 (1%)
Query: 11 VTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKT 70
++ELIGNTP+V LN + +GC A + KLE P SVKDRIA +MI DAE +GL+ PG
Sbjct: 1 ISELIGNTPLVRLNRI-EGCNANVFVKLEGRNPSGSVKDRIALNMIWDAEKRGLLKPG-K 58
Query: 71 TLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEI 130
T++E TSGNTG+ LA +AAARGY LI+ MP T S+ERR +L+A GAE++L A +
Sbjct: 59 TIVEPTSGNTGIALAMVAAARGYKLILTMPETMSIERRKLLKAYGAELVLTPGAEGMKGA 118
Query: 131 LEKGEEILKKTPDGY-LLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVT 189
+ K EEI TP+ Y +L+QFENPANP+IH +TTGPEIW+D+ GK+DAF++G+GTGGT+T
Sbjct: 119 IAKAEEIAASTPNSYFMLQQFENPANPEIHRKTTGPEIWRDTDGKLDAFVAGVGTGGTIT 178
Query: 190 GAGRFLKENNPDIKVV 205
G G LKE P+IK+V
Sbjct: 179 GVGEVLKEQKPNIKIV 194
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 285 bits (729), Expect = 8e-96
Identities = 133/203 (65%), Positives = 164/203 (80%)
Query: 3 DNNAIKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDK 62
D I +V++LIG TPMVYLN++ GCVA IAAKLE MEPC SVKDRI YSM+ DAE K
Sbjct: 109 DGLNIADNVSQLIGKTPMVYLNSIAKGCVANIAAKLEIMEPCCSVKDRIGYSMVTDAEQK 168
Query: 63 GLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILAD 122
G I+PGK+ L+E TSGNTG+GLAFIAA+RGY LI+ MP++ SMERR++L+A GAE++L D
Sbjct: 169 GFISPGKSVLVEPTSGNTGIGLAFIAASRGYRLILTMPASMSMERRVLLKAFGAELVLTD 228
Query: 123 SALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGI 182
A ++K EEILK TPD Y+L+QF+NPANPKIHYETTGPEIW D+ GKVD F++GI
Sbjct: 229 PAKGMTGAVQKAEEILKNTPDAYMLQQFDNPANPKIHYETTGPEIWDDTKGKVDIFVAGI 288
Query: 183 GTGGTVTGAGRFLKENNPDIKVV 205
GTGGT+TG GRF+KE NP +V+
Sbjct: 289 GTGGTITGVGRFIKEKNPKTQVI 311
>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 = 279 bits (717), Expect = 1e-95
Identities = 111/193 (57%), Positives = 140/193 (72%), Gaps = 3/193 (1%)
Query: 16 GNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEV 75
GNTP+V LN + G A I AKLE P SVKDRIA MI+DAE +GL+ PG TT+IE
Sbjct: 1 GNTPLVRLNRLSPGTGAEIYAKLEFFNPGGSVKDRIALYMIEDAEKRGLLKPG-TTIIEP 59
Query: 76 TSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIIL--ADSALRFEEILEK 133
TSGNTG+GLA +AAA+GY IIVMP T S E+R +LRALGAE+IL A + + K
Sbjct: 60 TSGNTGIGLAMVAAAKGYRFIIVMPETMSEEKRKLLRALGAEVILTPEAEADGMKGAIAK 119
Query: 134 GEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGR 193
E+ +TP+ + L QFENPANP+ HYETT PEIW+ GKVDAF++G+GTGGT+TG R
Sbjct: 120 ARELAAETPNAFWLNQFENPANPEAHYETTAPEIWEQLDGKVDAFVAGVGTGGTITGVAR 179
Query: 194 FLKENNPDIKVVL 206
+LKE NP++++V
Sbjct: 180 YLKEKNPNVRIVG 192
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 280 bits (718), Expect = 1e-95
Identities = 113/202 (55%), Positives = 145/202 (71%), Gaps = 3/202 (1%)
Query: 7 IKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLIT 66
I + +LIGNTP+V LN + G I AKLE+ P SVKDRIA MI+DAE +GL+
Sbjct: 1 IYESILDLIGNTPLVRLNRLSPGTGVEIYAKLESFNPGGSVKDRIALYMIEDAEKRGLLK 60
Query: 67 PGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSA-L 125
PG T++E TSGNTG+ LA +AAA+GY LIIVMP T S ERR +LRALGAE+IL A
Sbjct: 61 PG-GTIVEATSGNTGIALAMVAAAKGYRLIIVMPETMSQERRKLLRALGAEVILTPGAPG 119
Query: 126 RFEEILEKGEEILKKTPD-GYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGT 184
+ +E+ +E+ + P L QFENPANP+ HYETTGPEIWQ + GKVDAF++G+GT
Sbjct: 120 NMKGAIERAKELAAEIPGYAVWLNQFENPANPEAHYETTGPEIWQQTDGKVDAFVAGVGT 179
Query: 185 GGTVTGAGRFLKENNPDIKVVL 206
GGT+TG R+LKE NP++++V
Sbjct: 180 GGTITGVARYLKERNPNVRIVA 201
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 274 bits (701), Expect = 3e-92
Identities = 113/198 (57%), Positives = 152/198 (76%)
Query: 7 IKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLIT 66
IK D ++LIG TP+VYLN V +GC A IAAK E +P SS+KDR A +MI+DAE K LIT
Sbjct: 49 IKTDASQLIGKTPLVYLNKVTEGCGAYIAAKQEMFQPTSSIKDRPALAMIEDAEKKNLIT 108
Query: 67 PGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALR 126
PGKTTLIE TSGN G+ LAF+AA +GY +I+ MPS S+ERR+ +RA GAE++L D
Sbjct: 109 PGKTTLIEPTSGNMGISLAFMAAMKGYKMILTMPSYTSLERRVTMRAFGAELVLTDPTKG 168
Query: 127 FEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGG 186
++K E+L+ TPD ++L+QF NPAN ++H+ETTGPEIW+D+ G+VD F+ GIG+GG
Sbjct: 169 MGGTVKKAYELLESTPDAFMLQQFSNPANTQVHFETTGPEIWEDTLGQVDIFVMGIGSGG 228
Query: 187 TVTGAGRFLKENNPDIKV 204
TV+G G++LK NP++K+
Sbjct: 229 TVSGVGKYLKSKNPNVKI 246
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 244 bits (626), Expect = 3e-81
Identities = 103/215 (47%), Positives = 139/215 (64%), Gaps = 24/215 (11%)
Query: 7 IKRDVTELIGNTPMVYLNNVVD--GCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGL 64
I DV++ IGNTP++ LN + GC I K E + P SVKDR A ++I DAE +GL
Sbjct: 3 IFEDVSDTIGNTPLIRLNRASEATGC--EILGKAEFLNPGGSVKDRAALNIIWDAEKRGL 60
Query: 65 ITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADS- 123
+ PG T ++E T+GNTG+GLA +AAARGY +IVMP T S E++ +LRALGAE++L +
Sbjct: 61 LKPGGT-IVEGTAGNTGIGLALVAAARGYKTVIVMPETQSQEKKDLLRALGAELVLVPAA 119
Query: 124 -----------ALRFEEILEKGEEILKKTPDGYL-LRQFENPANPKIHYETTGPEIWQDS 171
A R EE++ P+G + QF+NPAN + HYETTGPEIW+ +
Sbjct: 120 PYANPNNYVKGAGR------LAEELVASEPNGAIWANQFDNPANREAHYETTGPEIWEQT 173
Query: 172 GGKVDAFISGIGTGGTVTGAGRFLKENNPDIKVVL 206
GKVD F+ +GTGGT+ G R+LKE NP +K+VL
Sbjct: 174 DGKVDGFVCAVGTGGTLAGVSRYLKETNPKVKIVL 208
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 225 bits (577), Expect = 2e-74
Identities = 92/193 (47%), Positives = 120/193 (62%), Gaps = 2/193 (1%)
Query: 13 ELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTL 72
+ IGNTP+V L + I AKLE P SVKDR A SMI AE +G I PG TL
Sbjct: 8 DTIGNTPLVKLQRLPPDRGNTILAKLEGNNPAGSVKDRPALSMIVQAEKRGEIKPG-DTL 66
Query: 73 IEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILE 132
IE TSGNTG+ LA IAA +GY + ++MP S ERR +RA GAE+IL E +
Sbjct: 67 IEATSGNTGIALAMIAAIKGYRMKLIMPENMSQERRAAMRAYGAELILVPKEQGMEGARD 126
Query: 133 KGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAG 192
++ + +G +L QF NP NP HYETTGPEIW+ + G++ F+S +GT GT+ G
Sbjct: 127 LALQMQAEG-EGKVLDQFANPDNPLAHYETTGPEIWRQTEGRITHFVSSMGTTGTIMGVS 185
Query: 193 RFLKENNPDIKVV 205
R+LKE NP +++V
Sbjct: 186 RYLKEQNPAVQIV 198
>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 = 217 bits (554), Expect = 5e-69
Identities = 97/202 (48%), Positives = 134/202 (66%), Gaps = 4/202 (1%)
Query: 7 IKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLIT 66
I+ ++ +LIGNTP+V LN V G + AK E P SVKDRIA MI+DAE G +
Sbjct: 1 IRDNIIDLIGNTPLVRLNKVSKGIKCELLAKCEFFNPGGSVKDRIALRMIEDAEASGRLK 60
Query: 67 PGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALR 126
PG T+IE TSGNTG+GLA +AA +GY IIV+P S E+ VL+ALGAEI+ +A
Sbjct: 61 PG-DTIIEPTSGNTGIGLALVAAIKGYKCIIVLPEKMSNEKVDVLKALGAEIVRTPTAAA 119
Query: 127 F---EEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIG 183
F E + + ++++ P ++L Q+ NP+NP HY+ TGPEI + GK+D F++G G
Sbjct: 120 FDSPESHIGVAKRLVREIPGAHILDQYNNPSNPLAHYDGTGPEILEQCEGKLDMFVAGAG 179
Query: 184 TGGTVTGAGRFLKENNPDIKVV 205
TGGT+TG R+LKE+NP ++V
Sbjct: 180 TGGTITGIARYLKESNPKCRIV 201
>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 = 196 bits (499), Expect = 1e-62
Identities = 90/195 (46%), Positives = 120/195 (61%), Gaps = 2/195 (1%)
Query: 11 VTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKT 70
+ + +GNTP+V L + + + KLE P SVKDR A SMI +AE +G I PG
Sbjct: 2 IEQTVGNTPLVRLQRMGPENGSEVWLKLEGNNPAGSVKDRPALSMIVEAEKRGEIKPGDV 61
Query: 71 TLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEI 130
LIE TSGNTG+ LA IAA +GY + ++MP S ER+ +RA GAE+IL E
Sbjct: 62 -LIEATSGNTGIALAMIAALKGYRMKLLMPDNMSQERKAAMRAYGAELILVTKEEGMEGA 120
Query: 131 LEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTG 190
+ E+ + G LL QF NP NP HY +TGPEIWQ +GG++ F+S +GT GT+ G
Sbjct: 121 RDLALELANRGE-GKLLDQFNNPDNPYAHYTSTGPEIWQQTGGRITHFVSSMGTTGTIMG 179
Query: 191 AGRFLKENNPDIKVV 205
RFLKE NP +++V
Sbjct: 180 VSRFLKEQNPPVQIV 194
>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 = 188 bits (481), Expect = 2e-60
Identities = 75/189 (39%), Positives = 105/189 (55%), Gaps = 6/189 (3%)
Query: 18 TPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTS 77
TP+V L + A I KLE + P S KDR A ++I AE++G + K +IE T
Sbjct: 1 TPLVRLKRLSKLGGANIYLKLEFLNPTGSFKDRGALNLILLAEEEGKL--PKGVIIESTG 58
Query: 78 GNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEI 137
GNTG+ LA AA G IVMP S E+ +RALGAE++L F++ + +E+
Sbjct: 59 GNTGIALAAAAARLGLKCTIVMPEGASPEKVAQMRALGAEVVLVPGD--FDDAIALAKEL 116
Query: 138 LKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGG-KVDAFISGIGTGGTVTGAGRFLK 196
++ P Y + QF+NPAN T G EI + GG K DA + +G GG + G R LK
Sbjct: 117 AEEDPGAYYVNQFDNPANIAGQG-TIGLEILEQLGGQKPDAVVVPVGGGGNIAGIARALK 175
Query: 197 ENNPDIKVV 205
E P++KV+
Sbjct: 176 ELLPNVKVI 184
>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 = 173 bits (442), Expect = 6e-54
Identities = 76/199 (38%), Positives = 104/199 (52%), Gaps = 6/199 (3%)
Query: 11 VTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKT 70
+ LIGNTP+V L + R+ AKLE P S+KDR A +++ A +G ITPG T
Sbjct: 1 ILSLIGNTPLVKLERLFPDAPFRLFAKLEGFNPGGSIKDRPALYILEAAIKRGRITPG-T 59
Query: 71 TLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEI 130
T+IE +SGN G+ LA I A +G I V+ S + +LRA GAE+
Sbjct: 60 TIIESSSGNLGIALAMICAYKGLRFICVVDPNISPQNLKLLRAYGAEVEKVTEPDETGGY 119
Query: 131 L----EKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGG 186
L + E+L PD Y Q+ NP NP+ HY TG EI + +D G+ T G
Sbjct: 120 LGTRIARVRELLASIPDAYWPNQYANPDNPRAHYHGTGREIARAF-PPLDYLFVGVSTTG 178
Query: 187 TVTGAGRFLKENNPDIKVV 205
T+ G R L+E P+ KV+
Sbjct: 179 TLMGCSRRLRERGPNTKVI 197
>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 = 164 bits (416), Expect = 4e-50
Identities = 72/199 (36%), Positives = 106/199 (53%), Gaps = 13/199 (6%)
Query: 11 VTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKT 70
++ IG TP+V L + AR+ KLE++ P S KDR A ++ A ++G
Sbjct: 1 ISLGIGPTPLVRLPS--PLLGARVYLKLESLNPTGSFKDRGAAYLLLRALERG------A 52
Query: 71 TLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEE- 129
T++E +SGNTG LA AA G + IV+P S + +++RALGAE+IL S +++
Sbjct: 53 TVVEASSGNTGRALAAAAARLGLKVTIVVPEGASPGKLLLMRALGAEVILVVSEGDYDDA 112
Query: 130 --ILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSG-GKVDAFISGIGTGG 186
+ E+ E+L L Q+ NP N Y+T G EI + G G DA + +G GG
Sbjct: 113 LELAEEAAELLAAYDGPIPLGQYNNP-NVIAGYKTIGLEILEQLGQGDPDAVVVPVGGGG 171
Query: 187 TVTGAGRFLKENNPDIKVV 205
G R LKE P I+V+
Sbjct: 172 LAAGIARGLKELGPGIRVI 190
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 132 bits (333), Expect = 9e-37
Identities = 80/243 (32%), Positives = 120/243 (49%), Gaps = 42/243 (17%)
Query: 5 NAIKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGL 64
+ + + IGNTP++ +N++ + I K E + P SVKDR+A +I++A + G
Sbjct: 41 KKPRNGLIDAIGNTPLIRINSLSEATGCEILGKCEFLNPGGSVKDRVAVKIIEEALESGQ 100
Query: 65 ITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEI------ 118
+ PG + E ++G+T + LA +A A G +V+P ++E+ +L ALGA +
Sbjct: 101 LFPGGV-VTEGSAGSTAISLATVAPAYGCKCHVVIPDDVAIEKSQILEALGATVERVRPV 159
Query: 119 -------------ILADSALRFEEILEKGEEI----LKKT------------------PD 143
A A KG E L+KT
Sbjct: 160 SITHKDHYVNIARRRALEANELASKRRKGSETDGIHLEKTNGCISEEEKENSLFSSSCTG 219
Query: 144 GYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLKENNPDIK 203
G+ QFEN AN + HYE TGPEIW+ + G +DAF++ GTGGT+ G RFL+E NP+IK
Sbjct: 220 GFFADQFENLANFRAHYEGTGPEIWEQTQGNLDAFVAAAGTGGTLAGVSRFLQEKNPNIK 279
Query: 204 VVL 206
L
Sbjct: 280 CFL 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 = 76.8 bits (190), Expect = 7e-17
Identities = 51/201 (25%), Positives = 87/201 (43%), Gaps = 35/201 (17%)
Query: 18 TPMVY---LNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMI----KDAEDKGLITPGKT 70
TP++ L+ ++ A + K E ++ S K R AY+ + ++ KG++
Sbjct: 18 TPLLTSPTLSELLG---AEVYLKCENLQKTGSFKIRGAYNKLLSLSEEERAKGVVA---- 70
Query: 71 TLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEI 130
++GN G+A+ A G IVMP T + RA GAE++L F+E
Sbjct: 71 ----ASAGNHAQGVAYAAKLLGIPATIVMPETAPAAKVDATRAYGAEVVLYGE--DFDEA 124
Query: 131 LEKGEEILKKTPDGYLLRQFENPANPKIHYE------TTGPEIWQDSGGKVDAFISGIGT 184
K E+ ++ G F +P + + T G EI + +DA +G
Sbjct: 125 EAKARELAEEE--GLT---FIHPFD---DPDVIAGQGTIGLEILEQV-PDLDAVFVPVGG 175
Query: 185 GGTVTGAGRFLKENNPDIKVV 205
GG + G +K +P+ KV+
Sbjct: 176 GGLIAGIATAVKALSPNTKVI 196
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 76.5 bits (189), Expect = 1e-16
Identities = 51/192 (26%), Positives = 83/192 (43%), Gaps = 15/192 (7%)
Query: 18 TPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTS 77
TP+ ++ + A I K E ++P S K R AY+ + ++ G +I ++
Sbjct: 26 TPLQRSPSLSERLGAEIYLKRENLQPVGSFKIRGAYNKLSSLSEEEERAAG---VIAASA 82
Query: 78 GNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEI 137
GN G+A+ A G IVMP T + R GAE+IL F++ EE+
Sbjct: 83 GNHAQGVAYAAKRLGIKATIVMPETTPKIKVDATRGYGAEVILHGD--NFDDAYAAAEEL 140
Query: 138 LKKTPDGYLLRQFENPANPKIH----YETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGR 193
++ + F++P T EI + DA +G GG ++G
Sbjct: 141 AEEE-GLTFVPPFDDP-----DVIAGQGTIALEILEQLPDLPDAVFVPVGGGGLISGIAT 194
Query: 194 FLKENNPDIKVV 205
LK +P+IKV+
Sbjct: 195 ALKALSPEIKVI 206
>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 = 61.3 bits (149), Expect = 3e-11
Identities = 48/192 (25%), Positives = 87/192 (45%), Gaps = 17/192 (8%)
Query: 18 TPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTS 77
TP++Y + D + + KLE ++ S K R A + I + + + ++ ++
Sbjct: 1 TPLIYSTTLSDITGSEVYLKLENLQKTGSFKIRGALNKIANLSEDQ----RQRGVVAASA 56
Query: 78 GNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEI 137
GN G+A+ A G +IVMP + + ++ GAE+IL ++E +
Sbjct: 57 GNHAQGVAYAAKKFGIKAVIVMPESAPPSKVKATKSYGAEVIL--HGDDYDEAYAFATSL 114
Query: 138 LKKTPDGY-LLRQFENP---ANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGR 193
++ G + F++ A T G EI +D VD I +G GG ++G
Sbjct: 115 AEEE--GRVFVHPFDDEFVMAGQG----TIGLEIMED-IPDVDTVIVPVGGGGLISGVAS 167
Query: 194 FLKENNPDIKVV 205
K+ NP++KV+
Sbjct: 168 AAKQINPNVKVI 179
>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 = 59.1 bits (144), Expect = 2e-10
Identities = 48/186 (25%), Positives = 81/186 (43%), Gaps = 16/186 (8%)
Query: 16 GNTPMVYLNNVVD-GCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIE 74
GNTP+V + + + K E + P S KDR + A K L G +
Sbjct: 21 GNTPLVRAPRLGERLGGKNLYVKDEGLNPTGSFKDRGMTVAVSKA--KEL---GVKAVAC 75
Query: 75 VTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKG 134
++GNT LA AA G ++ +P+ ++ + A GA ++ + F++ L
Sbjct: 76 ASTGNTSASLAAYAARAGIKCVVFLPAGKALGKLAQALAYGATVLAVEG--NFDDALRLV 133
Query: 135 EEILKKTPDGYLLRQFENPANP-KIH-YETTGPEIWQDSGGKV-DAFISGIGTGGTVTGA 191
E+ ++ YL N NP ++ +T EI + G +V D + +G GG +T
Sbjct: 134 RELAEENW-IYLS----NSLNPYRLEGQKTIAFEIAEQLGWEVPDYVVVPVGNGGNITAI 188
Query: 192 GRFLKE 197
+ KE
Sbjct: 189 WKGFKE 194
>gnl|CDD|236317 PRK08638, PRK08638, threonine dehydratase; Validated.
Length = 333
Score = 58.6 bits (142), Expect = 2e-10
Identities = 63/212 (29%), Positives = 94/212 (44%), Gaps = 23/212 (10%)
Query: 1 MEDNNAIKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAY---SMIK 57
++D K+ + I TP+ N + + C I KLE M+ S K R A+ S +
Sbjct: 11 IDDIIEAKQRLAGRIRKTPLPRSNYLSERCKGEIFLKLENMQRTGSFKIRGAFNKLSSLT 70
Query: 58 DAE-DKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGA 116
DAE KG++ ++GN G+A A G + +VMP + GA
Sbjct: 71 DAEKRKGVVA--------CSAGNHAQGVALSCALLGIDGKVVMPKGAPKSKVAATCGYGA 122
Query: 117 EIILADSALRFEEILEKGEEILKKTPDGYLLRQFENPAN-PKI--HYETTGPEIWQDSGG 173
E++L F + + K EEI+++ R F P + PK+ T G EI +D
Sbjct: 123 EVVLHGD--NFNDTIAKVEEIVEEEG-----RTFIPPYDDPKVIAGQGTIGLEILEDL-W 174
Query: 174 KVDAFISGIGTGGTVTGAGRFLKENNPDIKVV 205
VD I IG GG + G LK NP I ++
Sbjct: 175 DVDTVIVPIGGGGLIAGIAVALKSINPTIHII 206
>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 = 57.4 bits (139), Expect = 7e-10
Identities = 49/180 (27%), Positives = 82/180 (45%), Gaps = 22/180 (12%)
Query: 33 RIAAKLETMEPCSSVKDRIAYSMI----KDAEDKGLITPGKTTLIEVTSGNTGVGLAFIA 88
RI K E ++P S K R AY+ + + + +G+I ++GN G+AF A
Sbjct: 33 RILIKREDLQPVFSFKLRGAYNKMAQLSPEQKARGVIA--------ASAGNHAQGVAFSA 84
Query: 89 AARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTPDGYLLR 148
A G +IVMP T + +R G E++L + F++ K E+ ++ + +
Sbjct: 85 ARLGLKALIVMPETTPDIKVDAVRGFGGEVVLHGAN--FDDAKAKAIELSQEKGLTF-IH 141
Query: 149 QFENP---ANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLKENNPDIKVV 205
F++P A T EI + +DA +G GG G +K+ P+IKV+
Sbjct: 142 PFDDPLVIAGQG----TLALEILRQVANPLDAVFVPVGGGGLAAGVAALIKQLMPEIKVI 197
>gnl|CDD|237111 PRK12483, PRK12483, threonine dehydratase; Reviewed.
Length = 521
Score = 55.2 bits (133), Expect = 4e-09
Identities = 48/177 (27%), Positives = 81/177 (45%), Gaps = 16/177 (9%)
Query: 33 RIAAKLETMEPCSSVKDRIAYSMIK----DAEDKGLITPGKTTLIEVTSGNTGVGLAFIA 88
++ K E ++P S K R AY+ + + +G+IT ++GN G+A A
Sbjct: 53 QVLLKREDLQPVFSFKIRGAYNKMARLPAEQLARGVIT--------ASAGNHAQGVALAA 104
Query: 89 AARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTPDGYLLR 148
A G +IVMP T + +RA G E++L + F + L + L + +
Sbjct: 105 ARLGVKAVIVMPRTTPQLKVDGVRAHGGEVVLHGES--FPDALAHALK-LAEEEGLTFVP 161
Query: 149 QFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLKENNPDIKVV 205
F++P + T EI + G +DA +G GG + G ++K P+IKV+
Sbjct: 162 PFDDP-DVIAGQGTVAMEILRQHPGPLDAIFVPVGGGGLIAGIAAYVKYVRPEIKVI 217
>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 = 54.0 bits (130), Expect = 1e-08
Identities = 49/208 (23%), Positives = 91/208 (43%), Gaps = 13/208 (6%)
Query: 2 EDNNAIKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAED 61
+D A ++ + E++ +TP+ + + A I K E ++P S K R AY+ +K D
Sbjct: 1 QDIEAARKRLKEVVPHTPLQLNERLSEKYGANIYLKREDLQPVRSYKIRGAYNFLKQLSD 60
Query: 62 KGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAE---I 118
L ++ ++GN G A+ G + + MP+T ++ ++ G E I
Sbjct: 61 AQL----AKGVVCASAGNHAQGFAYACRHLGVHGTVFMPATTPKQKIDRVKIFGGEFIEI 116
Query: 119 ILADSALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYE-TTGPEIWQDSGGKVDA 177
IL F++ E ++ G + F++P I + T EI K D
Sbjct: 117 ILVGDT--FDQCAAAAREHVEDH-GGTFIPPFDDPR--IIEGQGTVAAEILDQLPEKPDY 171
Query: 178 FISGIGTGGTVTGAGRFLKENNPDIKVV 205
+ +G GG ++G +L +P K++
Sbjct: 172 VVVPVGGGGLISGLTTYLAGTSPKTKII 199
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 53.6 bits (130), Expect = 1e-08
Identities = 52/189 (27%), Positives = 85/189 (44%), Gaps = 40/189 (21%)
Query: 33 RIAAKLETMEPCSSVKDRIAYSMI----KDAEDKGLITPGKTTLIEVTSGNTGVGLAFIA 88
++ K E ++P S K R AY+ + ++ +G+IT ++GN G+A A
Sbjct: 36 QVLLKREDLQPVFSFKLRGAYNKMAQLTEEQLARGVIT--------ASAGNHAQGVALSA 87
Query: 89 AARGYNLIIVMPSTC-SMERRIVLRALGAEIILA-DSALRFEEILEKGEEILKKTPDGYL 146
A G +IVMP T ++ V RA G E++L DS F+E E+ ++ +G
Sbjct: 88 ARLGIKAVIVMPVTTPDIKVDAV-RAFGGEVVLHGDS---FDEAYAHAIELAEE--EGLT 141
Query: 147 LRQFENPANPKIH-YE---------TTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLK 196
IH ++ T EI Q +DA +G GG + G ++K
Sbjct: 142 F----------IHPFDDPDVIAGQGTIAMEILQQHPHPLDAVFVPVGGGGLIAGVAAYIK 191
Query: 197 ENNPDIKVV 205
+ P+IKV+
Sbjct: 192 QLRPEIKVI 200
>gnl|CDD|178165 PLN02550, PLN02550, threonine dehydratase.
Length = 591
Score = 51.5 bits (123), Expect = 9e-08
Identities = 47/181 (25%), Positives = 79/181 (43%), Gaps = 24/181 (13%)
Query: 33 RIAAKLETMEPCSSVKDRIAYSMI----KDAEDKGLITPGKTTLIEVTSGNTGVGLAFIA 88
++ K E ++P S K R AY+M+ K+ DKG+I ++GN G+A A
Sbjct: 125 KVLLKREDLQPVFSFKLRGAYNMMAKLPKEQLDKGVICS--------SAGNHAQGVALSA 176
Query: 89 AARGYNLIIVMPSTCSMERRIVLRALGAEIILA----DSALRFEEILEKGEEILKKTPDG 144
G + +I MP T + + LGA ++L D A + + E P
Sbjct: 177 QRLGCDAVIAMPVTTPEIKWQSVERLGATVVLVGDSYDEAQAYAKQRALEEGRTFIPP-- 234
Query: 145 YLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLKENNPDIKV 204
F++P + T G EI + G + A +G GG + G ++K P++K+
Sbjct: 235 -----FDHP-DVIAGQGTVGMEIVRQHQGPLHAIFVPVGGGGLIAGIAAYVKRVRPEVKI 288
Query: 205 V 205
+
Sbjct: 289 I 289
>gnl|CDD|235789 PRK06381, PRK06381, threonine synthase; Validated.
Length = 319
Score = 49.7 bits (119), Expect = 2e-07
Identities = 49/165 (29%), Positives = 71/165 (43%), Gaps = 21/165 (12%)
Query: 33 RIAAKLETMEPCSSVKDRIAYSMIKDAEDKGL--ITPGKTTLIEVTSGNTGVGLAFIAAA 90
+I K E P + KDRIA + ++ A G IT G T GN G +A+ A
Sbjct: 32 KIYLKFEGANPTGTQKDRIAEAHVRRAMRLGYSGITVG-------TCGNYGASIAYFARL 84
Query: 91 RGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTPDGYLLRQF 150
G +I +P + S R + GAEII D +EE +E+ + K+ +G
Sbjct: 85 YGLKAVIFIPRSYSNSRVKEMEKYGAEIIYVDGK--YEEAVERSRKFAKE--NGIY---D 137
Query: 151 ENP--ANPKIHYETTGP---EIWQDSGGKVDAFISGIGTGGTVTG 190
NP N + E EI++ G DA +G G T+ G
Sbjct: 138 ANPGSVNSVVDIEAYSAIAYEIYEALGDVPDAVAVPVGNGTTLAG 182
>gnl|CDD|180550 PRK06382, PRK06382, threonine dehydratase; Provisional.
Length = 406
Score = 49.9 bits (119), Expect = 2e-07
Identities = 52/205 (25%), Positives = 87/205 (42%), Gaps = 23/205 (11%)
Query: 8 KRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIA---YSMIKDAEDK-G 63
K + + TP+++ D I KLE + S K R A +S + + E + G
Sbjct: 16 KSYLEGYLNRTPLIHSTTFGDEYGGDIYFKLENFQKTGSFKSRGAVFKFSKLSEDELRNG 75
Query: 64 LITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADS 123
+IT ++GN G+A+ A+ G + IVMP ++ + A GA +IL
Sbjct: 76 VIT--------ASAGNHAQGVAYAASINGIDAKIVMPEYTIPQKVNAVEAYGAHVILTGR 127
Query: 124 ALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYE---TTGPEIWQDSGGKVDAFIS 180
++E ++I R F N + T G EI +D +D I
Sbjct: 128 D--YDEAHRYADKIAMDEN-----RTFIEAFNDRWVISGQGTIGLEIMEDL-PDLDQIIV 179
Query: 181 GIGTGGTVTGAGRFLKENNPDIKVV 205
+G GG ++G K NP++K++
Sbjct: 180 PVGGGGLISGIALAAKHINPNVKII 204
>gnl|CDD|181457 PRK08526, PRK08526, threonine dehydratase; Provisional.
Length = 403
Score = 48.6 bits (116), Expect = 6e-07
Identities = 48/204 (23%), Positives = 88/204 (43%), Gaps = 21/204 (10%)
Query: 8 KRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITP 67
K+ ++ + TP Y + A + K E ++ + K R AY+ I + ++
Sbjct: 11 KQRISGFVNKTPFAYAPFLSKISGAEVYLKKENLQITGAYKIRGAYNKIANLSEEQ---- 66
Query: 68 GKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRF 127
+ +I ++GN G+A A G +IVMP + + +ALGAE+IL +
Sbjct: 67 KQHGVIAASAGNHAQGVAISAKKFGIKAVIVMPEATPLLKVSGTKALGAEVILKGD--NY 124
Query: 128 EEILEKGEEILKKTPDGYLLRQFENPANPKIHYE------TTGPEIWQDSGGKVDAFISG 181
+E E K+ + + FE+ E T E+ + +D +
Sbjct: 125 DEAYAFALEYAKEN-NLTFIHPFED-------EEVMAGQGTIALEMLDEIS-DLDMVVVP 175
Query: 182 IGTGGTVTGAGRFLKENNPDIKVV 205
+G GG ++G K+ NP+IK++
Sbjct: 176 VGGGGLISGIASAAKQINPNIKII 199
>gnl|CDD|180709 PRK06815, PRK06815, hypothetical protein; Provisional.
Length = 317
Score = 48.5 bits (116), Expect = 6e-07
Identities = 46/182 (25%), Positives = 77/182 (42%), Gaps = 25/182 (13%)
Query: 32 ARIAAKLETMEPCSSVKDRIAYSMIK----DAEDKGLITPGKTTLIEVTSGNTGVGLAFI 87
+ K E ++ S K R A + ++ +G+IT +SGN G G+A
Sbjct: 35 CEVYLKCEHLQHTGSFKFRGASNKLRLLNEAQRQQGVIT--------ASSGNHGQGVALA 86
Query: 88 AAARGYNLIIVMPSTCSMERRIVLRALGAEIILA-DSALRFEEILEKGEEILKKTPDGYL 146
A G + + P S + +RALGAE+ L AL E + E K
Sbjct: 87 AKLAGIPVTVYAPEQASAIKLDAIRALGAEVRLYGGDALNAELAARRAAEQQGKV----- 141
Query: 147 LRQFENPAN-PKI--HYETTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLKENNPDIK 203
+ +P N P++ T G E+ + +DA +G GG ++G +LK +P +
Sbjct: 142 ---YISPYNDPQVIAGQGTIGMELVEQQ-PDLDAVFVAVGGGGLISGIATYLKTLSPKTE 197
Query: 204 VV 205
++
Sbjct: 198 II 199
>gnl|CDD|236182 PRK08198, PRK08198, threonine dehydratase; Provisional.
Length = 404
Score = 47.8 bits (115), Expect = 1e-06
Identities = 54/204 (26%), Positives = 91/204 (44%), Gaps = 44/204 (21%)
Query: 12 TELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAY----SMIKDAEDKGLITP 67
+EL G VYL K E ++ S K R AY S+ ++ +G++
Sbjct: 32 SELTGAE--VYL-------------KCENLQRTGSFKIRGAYNKIASLSEEERARGVVA- 75
Query: 68 GKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRF 127
++GN G+A+ A+ G IVMP T + + R+ GAE++L +
Sbjct: 76 -------ASAGNHAQGVAYAASLLGIKATIVMPETAPLSKVKATRSYGAEVVLHGDV--Y 126
Query: 128 EEILEKGEEILKKTPDGYLLRQFENPANPKIHYE------TTGPEIWQDSGGKVDAFISG 181
+E L K +E+ ++T G F +P + + T G EI +D VD +
Sbjct: 127 DEALAKAQELAEET--GAT---FVHPFD---DPDVIAGQGTIGLEILED-LPDVDTVVVP 177
Query: 182 IGTGGTVTGAGRFLKENNPDIKVV 205
IG GG ++G +K P+++V+
Sbjct: 178 IGGGGLISGVATAVKALRPEVRVI 201
>gnl|CDD|235842 PRK06608, PRK06608, threonine dehydratase; Provisional.
Length = 338
Score = 47.5 bits (113), Expect = 2e-06
Identities = 44/194 (22%), Positives = 84/194 (43%), Gaps = 25/194 (12%)
Query: 4 NNAIKRDVTELIGNTPMVY---LNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAE 60
+N IK+ + TP+V+ LN ++ I K+E+++ + K R + + + +
Sbjct: 14 HNRIKQYLHL----TPIVHSESLNEMLG---HEIFFKVESLQKTGAFKVRGVLNHLLELK 66
Query: 61 DKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIIL 120
++G + P K ++ ++GN G +A+ + G I +P S ++ G E+IL
Sbjct: 67 EQGKL-PDK--IVAYSTGNHGQAVAYASKLFGIKTRIYLPLNTSKVKQQAALYYGGEVIL 123
Query: 121 ADSALRFEEILEKGEEILKKTPDGYLLRQFENP---ANPKIHYETTGPEIWQDSGGKVDA 177
++ EE ++ EE Y + ++ A T E Q G DA
Sbjct: 124 TNTRQEAEEKAKEDEE-----QGFYYIHPSDSDSTIAGAG----TLCYEALQQLGFSPDA 174
Query: 178 FISGIGTGGTVTGA 191
+ G GG ++G
Sbjct: 175 IFASCGGGGLISGT 188
>gnl|CDD|223572 COG0498, ThrC, Threonine synthase [Amino acid transport and
metabolism].
Length = 411
Score = 46.9 bits (112), Expect = 2e-06
Identities = 40/167 (23%), Positives = 64/167 (38%), Gaps = 23/167 (13%)
Query: 33 RIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARG 92
+ K P S KDR ++ A++ G T++ +SGNTG A AA G
Sbjct: 95 NLYVKELGHNPTGSFKDRGMTVLVSLAKELG-----AKTILCASSGNTGASAAAYAARAG 149
Query: 93 YNLIIVMPSTC-SMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTPDGYLLRQFE 151
+ ++ P S + + LGA +I D F++ E +E + +
Sbjct: 150 LKVFVLYPKGKVSPGKLAQMLTLGAHVIAVDG--NFDDAQELVKEAANREGLLSAV---- 203
Query: 152 NPANP------KIHYETTGPEIWQDSGGKV-DAFISGIGTGGTVTGA 191
N NP K + EI + G K D + +G GG +
Sbjct: 204 NSINPYRLEGQKTYAF----EIAEQLGWKAPDHVVVPVGNGGNLLAI 246
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 46.7 bits (111), Expect = 3e-06
Identities = 32/113 (28%), Positives = 54/113 (47%), Gaps = 13/113 (11%)
Query: 7 IKRDVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLIT 66
IK ++ G TP++ N+ KL+ + P S KDR + ++I +KG+
Sbjct: 48 IKHFISLGEGRTPLIKKGNI--------WFKLDFLNPTGSYKDRGSVTLISYLAEKGI-- 97
Query: 67 PGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEII 119
+ E +SGN G +A AA G + I +P T S + + + GAE++
Sbjct: 98 ---KQISEDSSGNAGASIAAYGAAAGIEVKIFVPETASGGKLKQIESYGAEVV 147
>gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed.
Length = 352
Score = 44.7 bits (105), Expect = 1e-05
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 8/134 (5%)
Query: 10 DVTELIGNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGK 69
DV+ + GNTP++ L N+ ++ K E P S KDR + A+++ G
Sbjct: 21 DVSLMEGNTPLIPLLNISKQLGIQLYGKYEGANPTGSFKDRGMVMAVAKAKEE-----GS 75
Query: 70 TTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLR-ALGAEIILADSALRFE 128
+I ++GNT A AA G IIV+P ++ A GAEII + F+
Sbjct: 76 EAIICASTGNTSASAAAYAARLGMKCIIVIPEGKIAHGKLAQAVAYGAEIISIEG--NFD 133
Query: 129 EILEKGEEILKKTP 142
+ L+ I + P
Sbjct: 134 DALKAVRNIAAEEP 147
>gnl|CDD|235539 PRK05638, PRK05638, threonine synthase; Validated.
Length = 442
Score = 44.0 bits (104), Expect = 2e-05
Identities = 28/111 (25%), Positives = 44/111 (39%), Gaps = 9/111 (8%)
Query: 37 KLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLI 96
K ET P S +DR+A + I + GN +A +A G
Sbjct: 85 KDETRNPTGSFRDRLATVAVSYGLPYA-----ANGFIVASDGNAAASVAAYSARAGKEAF 139
Query: 97 IVMPSTCSMERRIVLRALGAEIILA----DSALRFEEILEKGEEILKKTPD 143
+V+P + I + A GA+II D A+ + E L + + TP+
Sbjct: 140 VVVPRKVDKGKLIQMIAFGAKIIRYGESVDEAIEYAEELARLNGLYNVTPE 190
>gnl|CDD|235699 PRK06110, PRK06110, hypothetical protein; Provisional.
Length = 322
Score = 43.4 bits (103), Expect = 3e-05
Identities = 22/53 (41%), Positives = 29/53 (54%)
Query: 67 PGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEII 119
P +I T GN G +AF A G IV+P S+E+ +RALGAE+I
Sbjct: 68 PRVRGVISATRGNHGQSVAFAARRHGLAATIVVPHGNSVEKNAAMRALGAELI 120
>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 = 43.2 bits (102), Expect = 4e-05
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 7/85 (8%)
Query: 68 GKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILA----DS 123
G T + T GN G G+A+ A G ++ MP + ER +RA GAE + D
Sbjct: 112 GDITFVTATDGNHGRGVAWAANQLGQKSVVYMPKGSAQERLENIRAEGAECTITDLNYDD 171
Query: 124 ALRF--EEILEKGEEILKKTP-DGY 145
A+R + E G +++ T +GY
Sbjct: 172 AVRLAWKMAQENGWVMVQDTAWEGY 196
>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 = 42.9 bits (101), Expect = 5e-05
Identities = 47/207 (22%), Positives = 82/207 (39%), Gaps = 18/207 (8%)
Query: 5 NAIKRDVTELIGN---TPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIK--DA 59
I+R + G TP+V ++ + C + KLE + S K R A + +
Sbjct: 4 QDIERAAARISGRVEETPLVESPSLSELCGVPVHLKLEHRQTTGSFKLRGATNAVLSLSD 63
Query: 60 EDKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEI- 118
+ ++ ++GN G LA+ AA G I M + +R LGAE+
Sbjct: 64 TQRAA------GVVAASTGNHGRALAYAAAEEGVRATICMSELVPQNKVDEIRRLGAEVR 117
Query: 119 ILADSALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAF 178
I+ S +E +E+ L +L F++P T G E+ + +
Sbjct: 118 IVGRSQDDAQEEVER----LVADRGLTMLPPFDHPDIVAGQ-GTLGLEVVEQM-PDLATV 171
Query: 179 ISGIGTGGTVTGAGRFLKENNPDIKVV 205
+ + GG +G +K PD +V+
Sbjct: 172 LVPLSGGGLASGVAMAVKAARPDTRVI 198
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 42.7 bits (101), Expect = 6e-05
Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 10/84 (11%)
Query: 52 AYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFI--AAARGYNLIIVMPSTCSMERRI 109
A+ + D+ + PG+T L V GVG A I A A G ++ V S E+
Sbjct: 130 AWLAL---FDRAGLKPGETVL--VHGAAGGVGSAAIQLAKALGATVVAV---VSSSEKLE 181
Query: 110 VLRALGAEIILADSALRFEEILEK 133
+L+ LGA+ ++ F E + +
Sbjct: 182 LLKELGADHVINYREEDFVEQVRE 205
>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 = 41.9 bits (99), Expect = 9e-05
Identities = 50/181 (27%), Positives = 83/181 (45%), Gaps = 15/181 (8%)
Query: 32 ARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAAR 91
+ KLE ++P S K R + + + +GL ++ + GN G+ A+ AAR
Sbjct: 16 CNVFLKLENLQPSGSFKIRGIGHLCQKSAKQGL--NECVHVVCSSGGNAGLAAAY--AAR 71
Query: 92 GYNL--IIVMPSTCSMERRIV--LRALGAEIILADSALRFEEILEKGEEILKKTPDGYLL 147
+ IV+P + + R+V LR GA +++ +E EE+ + P +
Sbjct: 72 KLGVPCTIVVPES--TKPRVVEKLRDEGATVVVHGKVW-WEADNYLREELAENDPGPVYV 128
Query: 148 RQFENPANPKIHYETTGPEIWQD--SGGKVDAFISGIGTGGTVTGAGRFLKENNP-DIKV 204
F++P + H + EI Q S KVDA + +G GG + G + L+ N DI V
Sbjct: 129 HPFDDPLIWEGH-SSMVDEIAQQLQSQEKVDAIVCSVGGGGLLNGIVQGLERNGWGDIPV 187
Query: 205 V 205
V
Sbjct: 188 V 188
>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 = 41.8 bits (98), Expect = 1e-04
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 11/87 (12%)
Query: 68 GKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRF 127
G+ T T GN G G+A+ A G ++ MP + ER + LGAE + D + +
Sbjct: 93 GQATFATATDGNHGRGVAWAAQQLGQKAVVYMPKGSAQERVENILNLGAECTITD--MNY 150
Query: 128 EEIL--------EKGEEILKKTP-DGY 145
++ + + G +++ T +GY
Sbjct: 151 DDTVRLAMQMAQQHGWVVVQDTAWEGY 177
>gnl|CDD|180539 PRK06352, PRK06352, threonine synthase; Validated.
Length = 351
Score = 39.7 bits (92), Expect = 6e-04
Identities = 49/192 (25%), Positives = 78/192 (40%), Gaps = 25/192 (13%)
Query: 16 GNTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEV 75
GNTP++ L N+ + K E + P S KDR + A+++ G +I
Sbjct: 27 GNTPLIPLPNLSKELGVTLYGKYEGLNPTGSFKDRGMVMAVAKAKEE-----GAEAVICA 81
Query: 76 TSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRAL------GAEIILADSALRFEE 129
++GNT A A G IV+P E ++ L L GA+II F+E
Sbjct: 82 STGNTSAAAAAYATRAGLKAYIVIP-----EGKVALGKLAQAVMYGADIISIQG--NFDE 134
Query: 130 ILEKGEEILKKTPDGYLLRQFENPANP-KIHYETTGP-EIWQDSGGKVDAFISGIGTGGT 187
L+ E+ + + N NP ++ + T EI + G D +G G
Sbjct: 135 ALKSVRELAETEAVTLV-----NSVNPYRLEGQKTAAFEICEQLGSAPDVLAIPVGNAGN 189
Query: 188 VTGAGRFLKENN 199
++ + KE N
Sbjct: 190 ISAYWKGFKEWN 201
>gnl|CDD|236186 PRK08206, PRK08206, diaminopropionate ammonia-lyase; Provisional.
Length = 399
Score = 39.5 bits (93), Expect = 7e-04
Identities = 24/55 (43%), Positives = 29/55 (52%)
Query: 68 GKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILAD 122
G T T GN G G+A+ A G +I MP S ER +RALGAE I+ D
Sbjct: 115 GDITFATATDGNHGRGVAWAAQQLGQKAVIYMPKGSSEERVDAIRALGAECIITD 169
>gnl|CDD|236244 PRK08329, PRK08329, threonine synthase; Validated.
Length = 347
Score = 37.9 bits (88), Expect = 0.002
Identities = 23/82 (28%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 37 KLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLI 96
KL+ ++P S KDR Y + +++G+ +I+ +SGN + LA + + G +
Sbjct: 77 KLDYLQPTGSFKDRGTYVTVAKLKEEGI----NEVVID-SSGNAALSLALYSLSEGIKVH 131
Query: 97 IVMPSTCSMERRIVLRALGAEI 118
+ + S E+ +L LGAE+
Sbjct: 132 VFVSYNASKEKISLLSRLGAEL 153
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-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 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. 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. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 37.2 bits (87), Expect = 0.004
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 18/108 (16%)
Query: 40 TMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFI--AAARGYNLII 97
++ PC+ AY +++D PG + N+ VG A I A G I
Sbjct: 128 SVNPCT------AYRLLEDFVKLQ---PGDW--VIQNGANSAVGQAVIQLAKLLGIKTIN 176
Query: 98 VM---PSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTP 142
V+ P ++ R L+ALGA+ +L + LR E + P
Sbjct: 177 VVRDRPDLEELKER--LKALGADHVLTEEELRSLLATELLKSAPGGRP 222
>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 = 36.8 bits (86), Expect = 0.004
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 3/75 (4%)
Query: 65 ITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSA 124
+ PG T LI G + VGLA + A+ V +T S ER +L+ LGA+ ++ D
Sbjct: 140 LQPGDTLLIR--GGTSSVGLAALKLAKALGA-TVTATTRSPERAALLKELGADEVVIDDG 196
Query: 125 LRFEEILEKGEEILK 139
E++ K
Sbjct: 197 AIAEQLRAAPGGFDK 211
>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 = 36.0 bits (84), Expect = 0.008
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 52 AYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAF--IAAARGYNLIIVMPSTCSMERRI 109
AY + + + PG + LI S VGLA IA A G V+ +T + E+R
Sbjct: 132 AYGAL---VELAGLRPGDSVLITAASS--SVGLAAIQIANAAG---ATVIATTRTSEKRD 183
Query: 110 VLRALGAEIILA 121
L ALGA ++
Sbjct: 184 ALLALGAAHVIV 195
>gnl|CDD|181283 PRK08197, PRK08197, threonine synthase; Validated.
Length = 394
Score = 36.1 bits (84), Expect = 0.008
Identities = 29/95 (30%), Positives = 38/95 (40%), Gaps = 11/95 (11%)
Query: 31 VARIAAKLETMEPCSSVKDR---IAYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFI 87
+ R+ K E + P S K R + S K+ K L P T+GN G A
Sbjct: 94 IGRLWVKDEGLNPTGSFKARGLAVGVSRAKELGVKHLAMP--------TNGNAGAAWAAY 145
Query: 88 AAARGYNLIIVMPSTCSMERRIVLRALGAEIILAD 122
AA G I MP+ R+ GAE+ L D
Sbjct: 146 AARAGIRATIFMPADAPEITRLECALAGAELYLVD 180
>gnl|CDD|215524 PLN02970, PLN02970, serine racemase.
Length = 328
Score = 36.2 bits (84), Expect = 0.008
Identities = 40/178 (22%), Positives = 65/178 (36%), Gaps = 25/178 (14%)
Query: 37 KLETMEPCSSVKDRIAY----SMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARG 92
K E + + K R A S+ D +KG++T +SGN LA A RG
Sbjct: 47 KCECFQKGGAFKFRGACNAIFSLSDDQAEKGVVTH--------SSGNHAAALALAAKLRG 98
Query: 93 YNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEI---LKKTPDGYLLRQ 149
IV+P + + G I E +E E + +++ L+
Sbjct: 99 IPAYIVVPKNAPACKVDAVIRYGGIIT------WCEPTVESREAVAARVQQETGAVLIHP 152
Query: 150 FENPANPKIHYE-TTGPEIWQDSGGKVDAFISGIGTGGTVTGAGRFLKENNPDIKVVL 206
+ + I + T E + +D I I GG ++G K P IK++
Sbjct: 153 YNDG--RVISGQGTIALEFLEQVPE-LDVIIVPISGGGLISGIALAAKAIKPSIKIIA 207
>gnl|CDD|235994 PRK07334, PRK07334, threonine dehydratase; Provisional.
Length = 403
Score = 36.0 bits (84), Expect = 0.009
Identities = 47/196 (23%), Positives = 85/196 (43%), Gaps = 23/196 (11%)
Query: 17 NTPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIA---YSMIKDAE-DKGLITPGKTTL 72
TP V+ + A + K E ++ +S K+R A ++ + E +G+I
Sbjct: 23 RTPCVHSRTLSQITGAEVWLKFENLQFTASFKERGALNKLLLLTEEERARGVIA------ 76
Query: 73 IEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILE 132
+++GN G+A+ A G IVMP + R GAE++L +E
Sbjct: 77 --MSAGNHAQGVAYHAQRLGIPATIVMPRFTPTVKVERTRGFGAEVVLHGE--TLDEARA 132
Query: 133 KGEEILKKTPDGYLLRQFENPAN-PKI--HYETTGPEIWQDSGGKVDAFISGIGTGGTVT 189
E+ ++ +G F +P + P + T E+ +D+ +D + IG GG ++
Sbjct: 133 HARELAEE--EG---LTFVHPYDDPAVIAGQGTVALEMLEDAPD-LDTLVVPIGGGGLIS 186
Query: 190 GAGRFLKENNPDIKVV 205
G K PDI+++
Sbjct: 187 GMATAAKALKPDIEII 202
>gnl|CDD|236025 PRK07476, eutB, threonine dehydratase; Provisional.
Length = 322
Score = 35.3 bits (82), Expect = 0.014
Identities = 33/111 (29%), Positives = 50/111 (45%), Gaps = 13/111 (11%)
Query: 18 TPMVYLNNVVDGCVARIAAKLETMEPCSSVKDRIA----YSMIKDAEDKGLITPGKTTLI 73
TP+V ++ + KLET++P S K R A S+ +G++T
Sbjct: 20 TPLVASASLSARAGVPVWLKLETLQPTGSFKLRGATNALLSLSAQERARGVVT------- 72
Query: 74 EVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEI-ILADS 123
++GN G LA+ A A G I M + +RALGAE+ I+ S
Sbjct: 73 -ASTGNHGRALAYAARALGIRATICMSRLVPANKVDAIRALGAEVRIVGRS 122
>gnl|CDD|181319 PRK08246, PRK08246, threonine dehydratase; Provisional.
Length = 310
Score = 34.5 bits (80), Expect = 0.023
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 8/86 (9%)
Query: 37 KLETMEPCSSVKDRIAYSMIKDAEDKGLITPGKTTLIEVTS-GNTGVGLAFIAAARGYNL 95
KLE ++ S K R A++ + L P + S GN G+ +A+ AAA G
Sbjct: 42 KLEHLQHTGSFKARGAFNRL-------LAAPVPAAGVVAASGGNAGLAVAYAAAALGVPA 94
Query: 96 IIVMPSTCSMERRIVLRALGAEIILA 121
+ +P T + LRALGAE+++
Sbjct: 95 TVFVPETAPPAKVARLRALGAEVVVV 120
>gnl|CDD|239355 cd03057, GST_N_Beta, GST_N family, Class Beta subfamily; GSTs are
cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. The GST fold contains an N-terminal
TRX-fold domain and a C-terminal alpha helical domain,
with an active site located in a cleft between the two
domains. Unlike mammalian GSTs which detoxify a broad
range of compounds, the bacterial class Beta GSTs
exhibit limited GSH conjugating activity with a narrow
range of substrates. In addition to GSH conjugation,
they also bind antibiotics and reduce the antimicrobial
activity of beta-lactam drugs. The structure of the
Proteus mirabilis enzyme reveals that the cysteine in
the active site forms a covalent bond with GSH.
Length = 77
Score = 32.1 bits (74), Expect = 0.030
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 99 MPSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTPDGY 145
P CS+ I L LG L LR + +KG + L P G
Sbjct: 6 SPGACSLAPHIALEELGLPFELVRVDLRTKT--QKGADYLAINPKGQ 50
>gnl|CDD|236013 PRK07409, PRK07409, threonine synthase; Validated.
Length = 353
Score = 32.5 bits (75), Expect = 0.11
Identities = 42/145 (28%), Positives = 63/145 (43%), Gaps = 32/145 (22%)
Query: 11 VTELIGNTPMVYLNNVVD--GCVARIAAKLETMEPCSSVKDR---IAYSMIKDAEDKGLI 65
VT GNTP++ N+ + G + K E + P S KDR +A + K+
Sbjct: 25 VTLGEGNTPLIPAPNLSELLGV--EVYVKYEGLNPTGSFKDRGMTMAVTKAKEE------ 76
Query: 66 TPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRAL------GAEII 119
G +I ++GNT A AA G +++P E +I L L GAEII
Sbjct: 77 --GAKAVICASTGNTSASAAAYAARAGLKAFVLIP-----EGKIALGKLAQAVMYGAEII 129
Query: 120 LADSALR--FEEILEKGEEILKKTP 142
+ F++ LE E+ +K P
Sbjct: 130 ----QIDGNFDDALEIVRELAEKYP 150
>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 = 32.3 bits (74), Expect = 0.13
Identities = 35/148 (23%), Positives = 51/148 (34%), Gaps = 49/148 (33%)
Query: 52 AYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVL 111
AY ++ A G++ PG T L+ G GVGL A+
Sbjct: 122 AYHALRRA---GVLKPGDTVLVL---GAGGVGLLAAQLAK-------------------- 155
Query: 112 RALGAEIILAD-SALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPE--IW 168
A GA +I+ D S + E E G + + I Y+ E +
Sbjct: 156 -AAGARVIVTDRSDEKLELAKELGADHV-------------------IDYKEEDLEEELR 195
Query: 169 QDSGGKVDAFISGIGTGGTVTGAGRFLK 196
GG D I +G T+ A R L+
Sbjct: 196 LTGGGGADVVIDAVGGPETLAQALRLLR 223
>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 = 31.9 bits (73), Expect = 0.22
Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 12/87 (13%)
Query: 52 AYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFI--AAARGYNLIIVMPSTCSMERRI 109
A +M+ ++ + G+T L+ SG GVG A + A RG +I V +
Sbjct: 166 AENML----ERAGVGAGETVLVTGASG--GVGSALVQLAKRRGAIVIAV----AGAAKEE 215
Query: 110 VLRALGAEIILADSALRFEEILEKGEE 136
+RALGA+ ++ A + G E
Sbjct: 216 AVRALGADTVILRDAPLLADAKALGGE 242
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 31.5 bits (72), Expect = 0.28
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 67 PGKTTLIEVTSGNTGVGLAF--IAAARGYNLIIVMPSTCSMERRIV-LRALGAEII 119
GK +I T +G GLAF I AA G L++ +++R + LRA GAE++
Sbjct: 5 AGKVAVI--TGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQGAEVL 58
>gnl|CDD|235757 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 31.4 bits (72), Expect = 0.30
Identities = 23/90 (25%), Positives = 36/90 (40%), Gaps = 12/90 (13%)
Query: 16 GNTPMVYLNNVVDGC-VARIAAKLETMEPCSSVKDR---IAYSMIKDAEDKGLITPGKTT 71
G TP+ N+ V + K E P S KDR + + + G T
Sbjct: 66 GGTPLYRCPNLEKELGVKELYVKHEGANPTGSFKDRGMTVGVTKALEL--------GVKT 117
Query: 72 LIEVTSGNTGVGLAFIAAARGYNLIIVMPS 101
+ ++GNT LA AA G +++P+
Sbjct: 118 VACASTGNTSASLAAYAARAGLKCYVLLPA 147
>gnl|CDD|236318 PRK08639, PRK08639, threonine dehydratase; Validated.
Length = 420
Score = 31.3 bits (72), Expect = 0.33
Identities = 45/193 (23%), Positives = 73/193 (37%), Gaps = 41/193 (21%)
Query: 32 ARIAAKLETMEPCSSVKDRIAYSMI----KDAEDKGLITPGKTTLIEVTSGNTGVGLAFI 87
A + K E ++P S K R AY+ I + G++ ++GN G+A+
Sbjct: 40 ANVYLKREDLQPVRSYKLRGAYNAISQLSDEELAAGVVCA--------SAGNHAQGVAYA 91
Query: 88 AAARGYNLIIVMPSTCSMERRIVLRALGA---EIILA----DSALRFEEILEKGEEILKK 140
G +I MP T ++ +R G EI+L D + E EE
Sbjct: 92 CRHLGIPGVIFMPVTTPQQKIDQVRFFGGEFVEIVLVGDTFDDS--AAAAQEYAEET--- 146
Query: 141 TPDGYLLRQFENP------ANPKIHYETTGPEIWQDSG--GKVDAFISGIGTGGTVTGAG 192
+ F++P T EI + G D +G GG ++G
Sbjct: 147 --GATFIPPFDDPDVIAGQG-------TVAVEILEQLEKEGSPDYVFVPVGGGGLISGVT 197
Query: 193 RFLKENNPDIKVV 205
+LKE +P K++
Sbjct: 198 TYLKERSPKTKII 210
>gnl|CDD|176234 cd08273, MDR8, 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 = 331
Score = 31.1 bits (71), Expect = 0.34
Identities = 21/73 (28%), Positives = 27/73 (36%), Gaps = 11/73 (15%)
Query: 52 AYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFI--AAARGYNLIIVMPSTCSMERRI 109
AY M+ A + G+ LI + GVG A + A G + T S
Sbjct: 127 AYQMLHRAAK---VLTGQRVLI--HGASGGVGQALLELALLAGAEVY----GTASERNHA 177
Query: 110 VLRALGAEIILAD 122
LR LGA I
Sbjct: 178 ALRELGATPIDYR 190
>gnl|CDD|200462 cd11323, AmyAc_AGS, Alpha amylase catalytic domain found in Alpha
1,3-glucan synthase (also called uridine
diphosphoglucose-1,3-alpha-glucan glucosyltransferase
and 1,3-alpha-D-glucan synthase). Alpha 1,3-glucan
synthase (AGS, EC 2.4.1.183) is an enzyme that catalyzes
the reversible chemical reaction of UDP-glucose and
[alpha-D-glucosyl-(1-3)]n to form UDP and
[alpha-D-glucosyl-(1-3)]n+1. AGS is a component of
fungal cell walls. The cell wall of filamentous fungi is
composed of 10-15% chitin and 10-35% alpha-1,3-glucan.
AGS is triggered in fungi as a response to cell wall
stress and elongates the glucan chains in cell wall
synthesis. This group includes proteins from Ascomycetes
and Basidomycetes. The Alpha-amylase family comprises
the largest family of glycoside hydrolases (GH), with
the majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 569
Score = 31.1 bits (71), Expect = 0.37
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 4/53 (7%)
Query: 133 KGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQDSGGKVDAFISGIGTG 185
K + KTP Y+ F N N Y P W + G V A ++ TG
Sbjct: 191 KEYKAEWKTPRRYVDFNFTNTYNETCEY----PRFWDEDGTPVTADVTETLTG 239
>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 = 30.8 bits (70), Expect = 0.40
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 8/93 (8%)
Query: 11 VTELIGNTPMVYLNNVVDGC-VARIAAKLETMEPCSSVKDRIAYSMI-KDAEDKGLITPG 68
V G TP+ +V + + P S KDR + K E G
Sbjct: 17 VDLGEGVTPLFRSPALVANVGIKNLYVLELFHNPTLSFKDRGMAVALTKALEL------G 70
Query: 69 KTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPS 101
T++ ++GNTG A A G ++I+ P+
Sbjct: 71 NDTVLCASTGNTGAAAAAYAGKAGVKVVILYPA 103
>gnl|CDD|176233 cd08272, MDR6, 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 = 326
Score = 30.6 bits (70), Expect = 0.55
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 9/75 (12%)
Query: 61 DKGLITPGKTTLIEVTSGNTGVG-LAF-IAAARGYNLIIVMPSTCSMERRIVLRALGAEI 118
D+ + G+T LI +G GVG +A +A A G + +T S E+ R+LGA+
Sbjct: 138 DRAAVQAGQTVLIHGGAG--GVGHVAVQLAKAAGARVY----ATASSEKAAFARSLGADP 191
Query: 119 ILADSALRFEEILEK 133
I+ E + +
Sbjct: 192 II-YYRETVVEYVAE 205
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 29.9 bits (68), Expect = 0.81
Identities = 17/33 (51%), Positives = 18/33 (54%)
Query: 66 TPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIV 98
GKT LI S G LA A RGYNLI+V
Sbjct: 4 MKGKTALITGASSGIGAELAKQLARRGYNLILV 36
>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated.
Length = 822
Score = 30.4 bits (69), Expect = 0.83
Identities = 31/101 (30%), Positives = 45/101 (44%), Gaps = 23/101 (22%)
Query: 54 SMIKDAEDKGLITPGKTT---LIE-------VTSGN----TGVGLAFIAAARGYNLIIVM 99
S+IK+ E +GL T K T +IE V G+ T +G+A I A Y IV
Sbjct: 481 SLIKEMEKRGLGT--KATRHDIIEKLYKRGYVIEGDPPRPTDLGIAVIEALEKYAPEIVS 538
Query: 100 PSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKK 140
M + L A I D + E++ E+ E+LK+
Sbjct: 539 E---EMTAQ--LEADMQAI--EDGKKKKEDVTEESREMLKE 572
>gnl|CDD|235918 PRK07048, PRK07048, serine/threonine dehydratase; Validated.
Length = 321
Score = 29.6 bits (67), Expect = 0.95
Identities = 25/104 (24%), Positives = 42/104 (40%), Gaps = 11/104 (10%)
Query: 32 ARIAAKLETMEPCSSVKDRIAYSMIK--DAEDKGLITPGKTTLIEVTSGNTGVGLAFIAA 89
A++ K E + + K R AY+ + E + + ++ +SGN +A A
Sbjct: 39 AQVFFKCENFQRMGAFKFRGAYNALSQFSPEQR------RAGVVTFSSGNHAQAIALSAR 92
Query: 90 ARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEK 133
G IVMP + R G E++ D R+ E E+
Sbjct: 93 LLGIPATIVMPQDAPAAKVAATRGYGGEVVTYD---RYTEDREE 133
>gnl|CDD|234620 PRK00081, coaE, dephospho-CoA kinase; Reviewed.
Length = 194
Score = 29.3 bits (67), Expect = 1.1
Identities = 16/60 (26%), Positives = 22/60 (36%), Gaps = 18/60 (30%)
Query: 111 LRALGAEIILADSALRFEEILEKGEEILKK----------TPDGYLLRQ------FENPA 154
LGA +I AD+ E++E G L+ DG L R F +P
Sbjct: 22 FAELGAPVIDADAIAH--EVVEPGGPALQAIVEAFGPEILDADGELDRAKLRELVFSDPE 79
>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 = 29.7 bits (67), Expect = 1.1
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 68 GKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPST 102
G TL+ ++GNTG A ++A G +I+V+P +
Sbjct: 116 GGKTLVVASAGNTGRAFAEVSAITGQPVILVVPKS 150
>gnl|CDD|176220 cd08259, Zn_ADH5, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group contains proteins that
share the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenase family. 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. 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
(His-51), the ribose of NAD, a serine (Ser-48), 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 = 332
Score = 29.6 bits (67), Expect = 1.3
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 54 SMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRA 113
A + + G T L+ G G+ +A A G +I V T S E+ +L+
Sbjct: 149 GTAVHALKRAGVKKGDTVLVTGAGGGVGIHAIQLAKALGARVIAV---TRSPEKLKILKE 205
Query: 114 LGAE 117
LGA+
Sbjct: 206 LGAD 209
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 28.0 bits (63), Expect = 1.8
Identities = 14/53 (26%), Positives = 25/53 (47%)
Query: 81 GVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIILADSALRFEEILEK 133
GVGLA + A+ V+ S E+ + + LGA+ ++ F E + +
Sbjct: 1 GVGLAAVQLAKALGAARVIAVDRSEEKLELAKELGADHVINYRDEDFVERVRE 53
>gnl|CDD|147509 pfam05357, Phage_Coat_A, Phage Coat Protein A. Infection of
Escherichia coli by filamentous bacteriophages is
mediated by the minor phage coat protein A and involves
two distinct cellular receptors, the F' pilus and the
periplasmic protein TolA. These two receptors are
contacted in a sequential manner, such that binding of
TolA by the extreme N-terminal domain is conditional on
a primary interaction of the second coat protein A
domain with the F' pilus.
Length = 62
Score = 26.8 bits (59), Expect = 1.9
Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 6/42 (14%)
Query: 151 ENPANPKIHYETTGPEIWQDSGGKVDAF------ISGIGTGG 186
+NP PK E + P +W+ + +G T G
Sbjct: 21 QNPCLPKPSLEESQPNVWKFQNNRYANREGCLTVYTGTVTQG 62
>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 = 29.0 bits (65), Expect = 2.0
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 4/68 (5%)
Query: 53 YSMIKDAEDKGLITPGKTTLIEVTS-GNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVL 111
YS++ + E K + I V S GN G+ + I+AA G+ + + M + ++ L
Sbjct: 138 YSILAEPEFKQFFSRYS---IAVGSTGNLGLSIGIISAALGFQVTVHMSADARQWKKDKL 194
Query: 112 RALGAEII 119
R+ G ++
Sbjct: 195 RSHGVTVV 202
>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 = 2.6
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 6/34 (17%)
Query: 68 GKTTLIEVTSGNTGVGLAFIA---AARGYNLIIV 98
GK +I T N+G+G A A RG ++II
Sbjct: 1 GKVVVI--TGANSGIGKE-TARELAKRGAHVIIA 31
>gnl|CDD|215487 PLN02900, PLN02900, alanyl-tRNA synthetase.
Length = 936
Score = 28.8 bits (65), Expect = 2.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 119 ILADSALRFEEILEKGEEILKK 140
I+A+ L F + LEKG E KK
Sbjct: 377 IIAEEELSFGKTLEKGIEKFKK 398
>gnl|CDD|176215 cd08253, zeta_crystallin, Zeta-crystallin with NADP-dependent
quinone reductase activity (QOR). Zeta-crystallin is a
eye lens protein with NADP-dependent quinone reductase
activity (QOR). It has been cited as a structural
component in mammalian eyes, but also has homology to
quinone reductases in unrelated species. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and 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.
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. 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 = 27.9 bits (63), Expect = 3.5
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 61 DKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRI-VLRALGAE 117
+ G+T L V G+ VG A + AR ++ +T S ++R GA+
Sbjct: 138 HRAGAKAGETVL--VHGGSGAVGHAAVQLARWAGARVI--ATASSAEGAELVRQAGAD 191
>gnl|CDD|188164 TIGR01751, crot-CoA-red, crotonyl-CoA reductase. The enzyme
modelled by This model is responsible for the conversion
of crotonyl-CoA reductase to butyryl-CoA. In serine
cycle methylotrophic bacteria this enzyme is involved in
the process of acetyl-CoA to glyoxylate. In other
bacteria the enzyme is used to produce butyrate for
incorporation into polyketides such as tylosin from
Streptomyces fradiae and coronatine from Pseudomonas
syringae.
Length = 398
Score = 27.8 bits (62), Expect = 3.9
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 67 PGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVLRALGAEIIL 120
PG LI +G G +A A G N + V+ S E+ R+LGAE ++
Sbjct: 189 PGDNVLIWGAAGGLGSYATQLARAGGGNPVAVVSSP---EKAEYCRSLGAEAVI 239
>gnl|CDD|225590 COG3048, DsdA, D-serine dehydratase [Amino acid transport and
metabolism].
Length = 443
Score = 28.2 bits (63), Expect = 3.9
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 53 YSMIKDAEDKGLITPGKTTLIEVTS-GNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVL 111
YS++ E K + I V S GN G+ + ++AA G+ + + M + ++ L
Sbjct: 146 YSILLSEEFKDFFSRYS---IAVGSTGNLGLSIGIMSAALGFKVTVHMSADARAWKKDKL 202
Query: 112 RALGAEII 119
R+ G ++
Sbjct: 203 RSHGVTVV 210
>gnl|CDD|218198 pfam04662, Luteo_PO, Luteovirus P0 protein. This family of
proteins may be involved in suppression of PTGS a plant
defence mechanism.
Length = 208
Score = 27.4 bits (61), Expect = 4.3
Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 100 PSTCSMERRIVLRALGAEIILADSALRFEEILEKGEEILKKTPDGYLLRQFE 151
PST + R + R + L + R E L G E K+ LR E
Sbjct: 100 PSTKDVYRLFLQRNSSSS--LGERLQRHPECLAYGMEEFKRFL-SVWLRDIE 148
>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 = 27.7 bits (62), Expect = 4.5
Identities = 27/89 (30%), Positives = 42/89 (47%), Gaps = 16/89 (17%)
Query: 52 AYSMIKDAEDKGLITPGKTTLIEVTSGNTGVGLAFIAAARGYNLIIVMPSTCSMERRIVL 111
AY +K A + PG+T ++ SGNTG+ +A G +I V R+ L
Sbjct: 151 AYHALKTAG----LGPGETVVVFGASGNTGIFAVQLAKMMGAEVIAV-------SRKDWL 199
Query: 112 RALGAEIILADSALRFEEILEKGEEILKK 140
+ G AD + ++E+ EK +EI K
Sbjct: 200 KEFG-----ADEVVDYDEVEEKVKEITKM 223
>gnl|CDD|184450 PRK14012, PRK14012, cysteine desulfurase; Provisional.
Length = 404
Score = 27.6 bits (62), Expect = 4.9
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 3/30 (10%)
Query: 101 STC---SMERRIVLRALGAEIILADSALRF 127
S C S+E VLRALG LA S++RF
Sbjct: 326 SACTSASLEPSYVLRALGLNDELAHSSIRF 355
>gnl|CDD|215036 PLN00034, PLN00034, mitogen-activated protein kinase kinase;
Provisional.
Length = 353
Score = 27.1 bits (60), Expect = 7.4
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 26 VVDGCVARIAAKLETMEPCSSVKDRIAY 53
+ D V+RI A +TM+PC+S IAY
Sbjct: 209 IADFGVSRILA--QTMDPCNSSVGTIAY 234
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 26.8 bits (60), Expect = 8.3
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 12/63 (19%)
Query: 68 GKTTLIEVTSGNTGVGLA----FIAAARGYNLIIVMPSTCSMERRIVLRALGAEIIL--A 121
GKT LI T G +G+GL F+ A G + I S+E LG ++ A
Sbjct: 6 GKTALI--TGGTSGIGLETARQFL--AEGARVAITGRDPASLEA--ARAELGESALVIRA 59
Query: 122 DSA 124
D+
Sbjct: 60 DAG 62
>gnl|CDD|129522 TIGR00430, Q_tRNA_tgt, tRNA-guanine transglycosylase,
queuosine-34-forming. This tRNA-guanine
transglycosylase (tgt) catalyzes an exchange for the
guanine base at position 34 of many tRNAs; this
nucleotide is subsequently modified to queuosine. The
Archaea have a closely related enzyme that catalyzes a
base exchange for guanine at position 15 in some tRNAs,
a site that is subsequently converted to the
archaeal-specific modified base archaeosine
(7-formamidino-7-deazaguanosine), while Archaeoglobus
fulgidus has both enzymes [Protein synthesis, tRNA and
rRNA base modification].
Length = 368
Score = 26.6 bits (59), Expect = 10.0
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 16/64 (25%)
Query: 110 VLRALGAEIILADSALRFEEILEKGEEILKKTPDGYLLRQFENPANPKIHYETTGPEIWQ 169
L A GAEIILA++ + L G++I+K+ + Q++ P I
Sbjct: 43 ELEATGAEIILANT---YHLWLRPGQKIVKELGGLHKFMQWDGP-------------ILT 86
Query: 170 DSGG 173
DSGG
Sbjct: 87 DSGG 90
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 0.137 0.389
Gapped
Lambda K H
0.267 0.0703 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,297,341
Number of extensions: 1116666
Number of successful extensions: 1633
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1565
Number of HSP's successfully gapped: 132
Length of query: 210
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 117
Effective length of database: 6,812,680
Effective search space: 797083560
Effective search space used: 797083560
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: 57 (25.8 bits)