RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 027405
(224 letters)
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 422 bits (1086), Expect = e-151
Identities = 202/219 (92%), Positives = 212/219 (96%)
Query: 4 EKSVIAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEK 63
EKS IAKDVTELIGKTPLVYLN +VDGCVARIAAKLEMMEPCSSVKDRIGYSMI DAEEK
Sbjct: 1 EKSSIAKDVTELIGKTPLVYLNNVVDGCVARIAAKLEMMEPCSSVKDRIGYSMITDAEEK 60
Query: 64 GLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTD 123
GLI+PGESVLIEPTSGNTGIGLAFMAAAKGY+LIITMPASMSLERR++LLAFGAELVLTD
Sbjct: 61 GLIKPGESVLIEPTSGNTGIGLAFMAAAKGYKLIITMPASMSLERRIILLAFGAELVLTD 120
Query: 124 PARGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGI 183
PA+GMKGAVQKAEEI KTPNSY+LQQFENPANPKIHYETTGPEIWKGTGGK+DA VSGI
Sbjct: 121 PAKGMKGAVQKAEEILAKTPNSYILQQFENPANPKIHYETTGPEIWKGTGGKVDAFVSGI 180
Query: 184 GTGGTVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
GTGGT+TGAGKYLKE NP+IKLYGVEPVESAVLSGGKPG
Sbjct: 181 GTGGTITGAGKYLKEQNPDIKLYGVEPVESAVLSGGKPG 219
>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 = 340 bits (873), Expect = e-119
Identities = 134/211 (63%), Positives = 164/211 (77%), Gaps = 1/211 (0%)
Query: 12 VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGES 71
+ ELIG TPLV LNR+ GC AR+ AKLE P SVKDRI SMI DAE++GL++PG+
Sbjct: 1 IEELIGNTPLVRLNRLAPGCDARVLAKLEGRNPSGSVKDRIALSMIEDAEKRGLLKPGD- 59
Query: 72 VLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGA 131
+IE TSGNTGI LA +AAAKGY+LI+TMP +MSLERR +L A+GAEL+LT GMKGA
Sbjct: 60 TIIEATSGNTGIALAMVAAAKGYKLILTMPETMSLERRKLLRAYGAELILTPAEEGMKGA 119
Query: 132 VQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTG 191
+ KAEE+ +T +L QFENPANP+ HY+TTGPEIW+ T G+ID V+G+GTGGT+TG
Sbjct: 120 IDKAEELAAETNKYVMLDQFENPANPEAHYKTTGPEIWRDTDGRIDHFVAGVGTGGTITG 179
Query: 192 AGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
G+YLKE NP IK+ VEP ES VLSGG+PG
Sbjct: 180 VGRYLKEQNPNIKIVAVEPAESPVLSGGEPG 210
>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 = 335 bits (860), Expect = e-117
Identities = 138/212 (65%), Positives = 168/212 (79%), Gaps = 3/212 (1%)
Query: 12 VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGES 71
++ELIG TPLV LNRI +GC A + KLE P SVKDRI +MI DAE++GL++PG+
Sbjct: 1 ISELIGNTPLVRLNRI-EGCNANVFVKLEGRNPSGSVKDRIALNMIWDAEKRGLLKPGK- 58
Query: 72 VLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGA 131
++EPTSGNTGI LA +AAA+GY+LI+TMP +MS+ERR +L A+GAELVLT A GMKGA
Sbjct: 59 TIVEPTSGNTGIALAMVAAARGYKLILTMPETMSIERRKLLKAYGAELVLTPGAEGMKGA 118
Query: 132 VQKAEEIRDKTPNSYV-LQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVT 190
+ KAEEI TPNSY LQQFENPANP+IH +TTGPEIW+ T GK+DA V+G+GTGGT+T
Sbjct: 119 IAKAEEIAASTPNSYFMLQQFENPANPEIHRKTTGPEIWRDTDGKLDAFVAGVGTGGTIT 178
Query: 191 GAGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
G G+ LKE P IK+ VEP ES VLSGGKPG
Sbjct: 179 GVGEVLKEQKPNIKIVAVEPAESPVLSGGKPG 210
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 333 bits (854), Expect = e-116
Identities = 154/220 (70%), Positives = 186/220 (84%)
Query: 3 EEKSVIAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEE 62
E++ +I DVTELIG TP+VYLN IVDGCVARIAAKLEMMEPCSSVKDRI YSMI DAE+
Sbjct: 2 EDRCLIKNDVTELIGNTPMVYLNNIVDGCVARIAAKLEMMEPCSSVKDRIAYSMIKDAED 61
Query: 63 KGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLT 122
KGLI PG+S LIE T+GNTGIGLA + AA+GY++I+ MP++MSLERR++L A GAE+ LT
Sbjct: 62 KGLITPGKSTLIEATAGNTGIGLACIGAARGYKVILVMPSTMSLERRIILRALGAEVHLT 121
Query: 123 DPARGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSG 182
D + G+KG ++KAEEI KTP Y+ QQFENPANP+IHY TTGPEIW+ + GK+D LV+G
Sbjct: 122 DQSIGLKGMLEKAEEILSKTPGGYIPQQFENPANPEIHYRTTGPEIWRDSAGKVDILVAG 181
Query: 183 IGTGGTVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
+GTGGT TG GK+LKE N +IK+ VEPVESAVLSGG+PG
Sbjct: 182 VGTGGTATGVGKFLKEKNKDIKVCVVEPVESAVLSGGQPG 221
>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 = 325 bits (835), Expect = e-113
Identities = 125/209 (59%), Positives = 155/209 (74%), Gaps = 3/209 (1%)
Query: 17 GKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEP 76
G TPLV LNR+ G A I AKLE P SVKDRI MI DAE++GL++PG + +IEP
Sbjct: 1 GNTPLVRLNRLSPGTGAEIYAKLEFFNPGGSVKDRIALYMIEDAEKRGLLKPG-TTIIEP 59
Query: 77 TSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPA--RGMKGAVQK 134
TSGNTGIGLA +AAAKGYR II MP +MS E+R +L A GAE++LT A GMKGA+ K
Sbjct: 60 TSGNTGIGLAMVAAAKGYRFIIVMPETMSEEKRKLLRALGAEVILTPEAEADGMKGAIAK 119
Query: 135 AEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGAGK 194
A E+ +TPN++ L QFENPANP+ HYETT PEIW+ GK+DA V+G+GTGGT+TG +
Sbjct: 120 ARELAAETPNAFWLNQFENPANPEAHYETTAPEIWEQLDGKVDAFVAGVGTGGTITGVAR 179
Query: 195 YLKEHNPEIKLYGVEPVESAVLSGGKPGG 223
YLKE NP +++ GV+PV S + SGG PG
Sbjct: 180 YLKEKNPNVRIVGVDPVGSVLFSGGPPGP 208
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 327 bits (840), Expect = e-112
Identities = 159/215 (73%), Positives = 190/215 (88%)
Query: 8 IAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIR 67
IA +V++LIGKTP+VYLN I GCVA IAAKLE+MEPC SVKDRIGYSM+ DAE+KG I
Sbjct: 113 IADNVSQLIGKTPMVYLNSIAKGCVANIAAKLEIMEPCCSVKDRIGYSMVTDAEQKGFIS 172
Query: 68 PGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARG 127
PG+SVL+EPTSGNTGIGLAF+AA++GYRLI+TMPASMS+ERR++L AFGAELVLTDPA+G
Sbjct: 173 PGKSVLVEPTSGNTGIGLAFIAASRGYRLILTMPASMSMERRVLLKAFGAELVLTDPAKG 232
Query: 128 MKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGG 187
M GAVQKAEEI TP++Y+LQQF+NPANPKIHYETTGPEIW T GK+D V+GIGTGG
Sbjct: 233 MTGAVQKAEEILKNTPDAYMLQQFDNPANPKIHYETTGPEIWDDTKGKVDIFVAGIGTGG 292
Query: 188 TVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
T+TG G+++KE NP+ ++ GVEP ES +LSGGKPG
Sbjct: 293 TITGVGRFIKEKNPKTQVIGVEPTESDILSGGKPG 327
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 316 bits (810), Expect = e-108
Identities = 137/215 (63%), Positives = 173/215 (80%)
Query: 8 IAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIR 67
I D ++LIGKTPLVYLN++ +GC A IAAK EM +P SS+KDR +MI DAE+K LI
Sbjct: 49 IKTDASQLIGKTPLVYLNKVTEGCGAYIAAKQEMFQPTSSIKDRPALAMIEDAEKKNLIT 108
Query: 68 PGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARG 127
PG++ LIEPTSGN GI LAFMAA KGY++I+TMP+ SLERR+ + AFGAELVLTDP +G
Sbjct: 109 PGKTTLIEPTSGNMGISLAFMAAMKGYKMILTMPSYTSLERRVTMRAFGAELVLTDPTKG 168
Query: 128 MKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGG 187
M G V+KA E+ + TP++++LQQF NPAN ++H+ETTGPEIW+ T G++D V GIG+GG
Sbjct: 169 MGGTVKKAYELLESTPDAFMLQQFSNPANTQVHFETTGPEIWEDTLGQVDIFVMGIGSGG 228
Query: 188 TVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
TV+G GKYLK NP +K+YGVEP ES VL+GGKPG
Sbjct: 229 TVSGVGKYLKSKNPNVKIYGVEPAESNVLNGGKPG 263
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 309 bits (793), Expect = e-106
Identities = 123/215 (57%), Positives = 157/215 (73%), Gaps = 3/215 (1%)
Query: 8 IAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIR 67
I + + +LIG TPLV LNR+ G I AKLE P SVKDRI MI DAE++GL++
Sbjct: 1 IYESILDLIGNTPLVRLNRLSPGTGVEIYAKLESFNPGGSVKDRIALYMIEDAEKRGLLK 60
Query: 68 PGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARG 127
PG ++E TSGNTGI LA +AAAKGYRLII MP +MS ERR +L A GAE++LT A G
Sbjct: 61 PG-GTIVEATSGNTGIALAMVAAAKGYRLIIVMPETMSQERRKLLRALGAEVILTPGAPG 119
Query: 128 -MKGAVQKAEEIRDKTPNSYV-LQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGT 185
MKGA+++A+E+ + P V L QFENPANP+ HYETTGPEIW+ T GK+DA V+G+GT
Sbjct: 120 NMKGAIERAKELAAEIPGYAVWLNQFENPANPEAHYETTGPEIWQQTDGKVDAFVAGVGT 179
Query: 186 GGTVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGK 220
GGT+TG +YLKE NP +++ V+P S +LSGG+
Sbjct: 180 GGTITGVARYLKERNPNVRIVAVDPEGSVLLSGGE 214
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 258 bits (661), Expect = 2e-86
Identities = 105/219 (47%), Positives = 145/219 (66%), Gaps = 12/219 (5%)
Query: 8 IAKDVTELIGKTPLVYLNRIVD--GCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGL 65
I +DV++ IG TPL+ LNR + GC I K E + P SVKDR ++I DAE++GL
Sbjct: 3 IFEDVSDTIGNTPLIRLNRASEATGC--EILGKAEFLNPGGSVKDRAALNIIWDAEKRGL 60
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLT--- 122
++PG ++E T+GNTGIGLA +AAA+GY+ +I MP + S E++ +L A GAELVL
Sbjct: 61 LKPG-GTIVEGTAGNTGIGLALVAAARGYKTVIVMPETQSQEKKDLLRALGAELVLVPAA 119
Query: 123 ---DPARGMKGAVQKAEEIRDKTPNSYV-LQQFENPANPKIHYETTGPEIWKGTGGKIDA 178
+P +KGA + AEE+ PN + QF+NPAN + HYETTGPEIW+ T GK+D
Sbjct: 120 PYANPNNYVKGAGRLAEELVASEPNGAIWANQFDNPANREAHYETTGPEIWEQTDGKVDG 179
Query: 179 LVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEPVESAVLS 217
V +GTGGT+ G +YLKE NP++K+ +P SA+ S
Sbjct: 180 FVCAVGTGGTLAGVSRYLKETNPKVKIVLADPTGSALYS 218
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 243 bits (623), Expect = 4e-81
Identities = 102/205 (49%), Positives = 133/205 (64%), Gaps = 2/205 (0%)
Query: 14 ELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVL 73
+ IG TPLV L R+ I AKLE P SVKDR SMI AE++G I+PG+ L
Sbjct: 8 DTIGNTPLVKLQRLPPDRGNTILAKLEGNNPAGSVKDRPALSMIVQAEKRGEIKPGD-TL 66
Query: 74 IEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQ 133
IE TSGNTGI LA +AA KGYR+ + MP +MS ERR + A+GAEL+L +GM+GA
Sbjct: 67 IEATSGNTGIALAMIAAIKGYRMKLIMPENMSQERRAAMRAYGAELILVPKEQGMEGARD 126
Query: 134 KAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGAG 193
A +++ + VL QF NP NP HYETTGPEIW+ T G+I VS +GT GT+ G
Sbjct: 127 LALQMQAEG-EGKVLDQFANPDNPLAHYETTGPEIWRQTEGRITHFVSSMGTTGTIMGVS 185
Query: 194 KYLKEHNPEIKLYGVEPVESAVLSG 218
+YLKE NP +++ G++P E + + G
Sbjct: 186 RYLKEQNPAVQIVGLQPEEGSSIPG 210
>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 = 224 bits (573), Expect = 1e-71
Identities = 99/216 (45%), Positives = 137/216 (63%), Gaps = 5/216 (2%)
Query: 8 IAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIR 67
I ++ +LIG TPLV LN++ G + AK E P SVKDRI MI DAE G ++
Sbjct: 1 IRDNIIDLIGNTPLVRLNKVSKGIKCELLAKCEFFNPGGSVKDRIALRMIEDAEASGRLK 60
Query: 68 PGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARG 127
PG +IEPTSGNTGIGLA +AA KGY+ II +P MS E+ VL A GAE+V T A
Sbjct: 61 PG-DTIIEPTSGNTGIGLALVAAIKGYKCIIVLPEKMSNEKVDVLKALGAEIVRTPTAAA 119
Query: 128 M---KGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIG 184
+ + A+ + + P +++L Q+ NP+NP HY+ TGPEI + GK+D V+G G
Sbjct: 120 FDSPESHIGVAKRLVREIPGAHILDQYNNPSNPLAHYDGTGPEILEQCEGKLDMFVAGAG 179
Query: 185 TGGTVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGK 220
TGGT+TG +YLKE NP+ ++ G +P E ++L+ +
Sbjct: 180 TGGTITGIARYLKESNPKCRIVGADP-EGSILAQPE 214
>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 = 217 bits (555), Expect = 5e-71
Identities = 97/207 (46%), Positives = 134/207 (64%), Gaps = 2/207 (0%)
Query: 12 VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGES 71
+ + +G TPLV L R+ + + KLE P SVKDR SMI +AE++G I+PG+
Sbjct: 2 IEQTVGNTPLVRLQRMGPENGSEVWLKLEGNNPAGSVKDRPALSMIVEAEKRGEIKPGD- 60
Query: 72 VLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGA 131
VLIE TSGNTGI LA +AA KGYR+ + MP +MS ER+ + A+GAEL+L GM+GA
Sbjct: 61 VLIEATSGNTGIALAMIAALKGYRMKLLMPDNMSQERKAAMRAYGAELILVTKEEGMEGA 120
Query: 132 VQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTG 191
A E+ ++ L QF NP NP HY +TGPEIW+ TGG+I VS +GT GT+ G
Sbjct: 121 RDLALELANRGEGKL-LDQFNNPDNPYAHYTSTGPEIWQQTGGRITHFVSSMGTTGTIMG 179
Query: 192 AGKYLKEHNPEIKLYGVEPVESAVLSG 218
++LKE NP +++ G++P E + + G
Sbjct: 180 VSRFLKEQNPPVQIVGLQPEEGSSIPG 206
>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 = 201 bits (515), Expect = 2e-65
Identities = 81/193 (41%), Positives = 107/193 (55%), Gaps = 6/193 (3%)
Query: 19 TPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTS 78
TPLV L R+ A I KLE + P S KDR ++I AEE+G + G V+IE T
Sbjct: 1 TPLVRLKRLSKLGGANIYLKLEFLNPTGSFKDRGALNLILLAEEEGKLPKG--VIIESTG 58
Query: 79 GNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEEI 138
GNTGI LA AA G + I MP S E+ + A GAE+VL A+ A+E+
Sbjct: 59 GNTGIALAAAAARLGLKCTIVMPEGASPEKVAQMRALGAEVVLVPG--DFDDAIALAKEL 116
Query: 139 RDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGG-KIDALVSGIGTGGTVTGAGKYLK 197
++ P +Y + QF+NPAN T G EI + GG K DA+V +G GG + G + LK
Sbjct: 117 AEEDPGAYYVNQFDNPANIAGQG-TIGLEILEQLGGQKPDAVVVPVGGGGNIAGIARALK 175
Query: 198 EHNPEIKLYGVEP 210
E P +K+ GVEP
Sbjct: 176 ELLPNVKVIGVEP 188
>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 = 178 bits (454), Expect = 2e-55
Identities = 80/215 (37%), Positives = 115/215 (53%), Gaps = 7/215 (3%)
Query: 12 VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGES 71
+ LIG TPLV L R+ R+ AKLE P S+KDR ++ A ++G I PG +
Sbjct: 1 ILSLIGNTPLVKLERLFPDAPFRLFAKLEGFNPGGSIKDRPALYILEAAIKRGRITPG-T 59
Query: 72 VLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLT---DPARGM 128
+IE +SGN GI LA + A KG R I + ++S + +L A+GAE+ D G
Sbjct: 60 TIIESSSGNLGIALAMICAYKGLRFICVVDPNISPQNLKLLRAYGAEVEKVTEPDETGGY 119
Query: 129 KGA-VQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGG 187
G + + E+ P++Y Q+ NP NP+ HY TG EI + +D L G+ T G
Sbjct: 120 LGTRIARVRELLASIPDAYWPNQYANPDNPRAHYHGTGREIAR-AFPPLDYLFVGVSTTG 178
Query: 188 TVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGKPG 222
T+ G + L+E P K+ V+ V S V+ GG PG
Sbjct: 179 TLMGCSRRLRERGPNTKVIAVDAVGS-VIFGGPPG 212
>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 = 162 bits (412), Expect = 3e-49
Identities = 71/216 (32%), Positives = 105/216 (48%), Gaps = 13/216 (6%)
Query: 12 VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGES 71
++ IG TPLV L + G R+ KLE + P S KDR ++ A E+G +
Sbjct: 1 ISLGIGPTPLVRLPSPLLGA--RVYLKLESLNPTGSFKDRGAAYLLLRALERG------A 52
Query: 72 VLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVL---TDPARGM 128
++E +SGNTG LA AA G ++ I +P S + +++ A GAE++L
Sbjct: 53 TVVEASSGNTGRALAAAAARLGLKVTIVVPEGASPGKLLLMRALGAEVILVVSEGDYDDA 112
Query: 129 KGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTG-GKIDALVSGIGTGG 187
++A E+ L Q+ NP N Y+T G EI + G G DA+V +G GG
Sbjct: 113 LELAEEAAELLAAYDGPIPLGQYNNP-NVIAGYKTIGLEILEQLGQGDPDAVVVPVGGGG 171
Query: 188 TVTGAGKYLKEHNPEIKLYGVEPVESAVLSGGKPGG 223
G + LKE P I++ GVEP + L+ G
Sbjct: 172 LAAGIARGLKELGPGIRVIGVEPEGAPALARSLEAG 207
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 121 bits (304), Expect = 2e-32
Identities = 77/245 (31%), Positives = 118/245 (48%), Gaps = 42/245 (17%)
Query: 14 ELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVL 73
+ IG TPL+ +N + + I K E + P SVKDR+ +I +A E G + PG V+
Sbjct: 49 DAIGNTPLIRINSLSEATGCEILGKCEFLNPGGSVKDRVAVKIIEEALESGQLFPG-GVV 107
Query: 74 IEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDP--------- 124
E ++G+T I LA +A A G + + +P +++E+ +L A GA + P
Sbjct: 108 TEGSAGSTAISLATVAPAYGCKCHVVIPDDVAIEKSQILEALGATVERVRPVSITHKDHY 167
Query: 125 ---AR-----------------GMKGAVQK------AEEIR------DKTPNSYVLQQFE 152
AR G + +EE + + QFE
Sbjct: 168 VNIARRRALEANELASKRRKGSETDGIHLEKTNGCISEEEKENSLFSSSCTGGFFADQFE 227
Query: 153 NPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEPVE 212
N AN + HYE TGPEIW+ T G +DA V+ GTGGT+ G ++L+E NP IK + ++P
Sbjct: 228 NLANFRAHYEGTGPEIWEQTQGNLDAFVAAAGTGGTLAGVSRFLQEKNPNIKCFLIDPPG 287
Query: 213 SAVLS 217
S + +
Sbjct: 288 SGLFN 292
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 78.0 bits (193), Expect = 5e-17
Identities = 53/203 (26%), Positives = 87/203 (42%), Gaps = 15/203 (7%)
Query: 18 KTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPT 77
TPL + + A I K E ++P S K R Y+ ++ E+ G +I +
Sbjct: 25 PTPLQRSPSLSERLGAEIYLKRENLQPVGSFKIRGAYNKLSSLSEEEERAAG---VIAAS 81
Query: 78 SGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEE 137
+GN G+A+ A G + I MP + + +GAE++L A AEE
Sbjct: 82 AGNHAQGVAYAAKRLGIKATIVMPETTPKIKVDATRGYGAEVILHG--DNFDDAYAAAEE 139
Query: 138 IRDKTPNSYVLQQFENPANPKIH----YETTGPEIWKGTGGKIDALVSGIGTGGTVTGAG 193
+ ++ + F++P T EI + DA+ +G GG ++G
Sbjct: 140 LAEEE-GLTFVPPFDDP-----DVIAGQGTIALEILEQLPDLPDAVFVPVGGGGLISGIA 193
Query: 194 KYLKEHNPEIKLYGVEPVESAVL 216
LK +PEIK+ GVEP + +
Sbjct: 194 TALKALSPEIKVIGVEPEGAPSM 216
>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 = 71.7 bits (177), Expect = 5e-15
Identities = 47/203 (23%), Positives = 85/203 (41%), Gaps = 29/203 (14%)
Query: 18 KTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPT 77
+TPL+ + + A + K E ++ S K R Y+ + E+ + ++ +
Sbjct: 17 RTPLLTSPTLSELLGAEVYLKCENLQKTGSFKIRGAYNKLLSLSEEERAKG----VVAAS 72
Query: 78 SGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEE 137
+GN G+A+ A G I MP + + A+GAE+VL A KA E
Sbjct: 73 AGNHAQGVAYAAKLLGIPATIVMPETAPAAKVDATRAYGAEVVLYG--EDFDEAEAKARE 130
Query: 138 IRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTG----------GKIDALVSGIGTGG 187
+ ++ +++ +P + P++ G G +DA+ +G GG
Sbjct: 131 LAEEEGLTFI-----HPFD--------DPDVIAGQGTIGLEILEQVPDLDAVFVPVGGGG 177
Query: 188 TVTGAGKYLKEHNPEIKLYGVEP 210
+ G +K +P K+ GVEP
Sbjct: 178 LIAGIATAVKALSPNTKVIGVEP 200
>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 = 64.4 bits (157), Expect = 4e-12
Identities = 55/188 (29%), Positives = 86/188 (45%), Gaps = 18/188 (9%)
Query: 34 RIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKG 93
RI K E ++P S K R Y+ +A + R +I ++GN G+AF AA G
Sbjct: 33 RILIKREDLQPVFSFKLRGAYNKMAQLSPEQKARG----VIAASAGNHAQGVAFSAARLG 88
Query: 94 YRLIITMPASMSLERRMVLLAFGAELVLTDPARG--MKGAVQKAEEIRDKTPNSYVLQQF 151
+ +I MP + + + FG E+VL G A KA E+ + +++ F
Sbjct: 89 LKALIVMPETTPDIKVDAVRGFGGEVVL----HGANFDDAKAKAIELSQEKGLTFI-HPF 143
Query: 152 ENP---ANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGV 208
++P A T EI + +DA+ +G GG G +K+ PEIK+ GV
Sbjct: 144 DDPLVIAGQG----TLALEILRQVANPLDAVFVPVGGGGLAAGVAALIKQLMPEIKVIGV 199
Query: 209 EPVESAVL 216
EP +S +
Sbjct: 200 EPTDSDCM 207
>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 = 4e-11
Identities = 54/210 (25%), Positives = 91/210 (43%), Gaps = 19/210 (9%)
Query: 19 TPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTS 78
TPL+Y + D + + KLE ++ S K R + IA+ E R ++ ++
Sbjct: 1 TPLIYSTTLSDITGSEVYLKLENLQKTGSFKIRGALNKIANLSEDQRQRG----VVAASA 56
Query: 79 GNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEEI 138
GN G+A+ A G + +I MP S + ++GAE++L A A +
Sbjct: 57 GNHAQGVAYAAKKFGIKAVIVMPESAPPSKVKATKSYGAEVILH--GDDYDEAYAFATSL 114
Query: 139 RDKTPNSYVLQQFENP---ANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGAGKY 195
++ +V F++ A T G EI + +D ++ +G GG ++G
Sbjct: 115 AEEEGRVFV-HPFDDEFVMAGQG----TIGLEIME-DIPDVDTVIVPVGGGGLISGVASA 168
Query: 196 LKEHNPEIKLYGVE----PVESAVLSGGKP 221
K+ NP +K+ GVE P L GK
Sbjct: 169 AKQINPNVKVIGVEAEGAPSMYESLREGKI 198
>gnl|CDD|237111 PRK12483, PRK12483, threonine dehydratase; Reviewed.
Length = 521
Score = 61.4 bits (149), Expect = 5e-11
Identities = 57/216 (26%), Positives = 101/216 (46%), Gaps = 16/216 (7%)
Query: 5 KSVIAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIA----DA 60
+ ++A V ++ +TPL + ++ K E ++P S K R Y+ +A +
Sbjct: 24 RKILAARVYDVARETPLQRAPNLSARLGNQVLLKREDLQPVFSFKIRGAYNKMARLPAEQ 83
Query: 61 EEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELV 120
+G+I ++GN G+A AA G + +I MP + + + A G E+V
Sbjct: 84 LARGVI--------TASAGNHAQGVALAAARLGVKAVIVMPRTTPQLKVDGVRAHGGEVV 135
Query: 121 LTDPARGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALV 180
L + A+ A ++ ++ ++V F++P + T EI + G +DA+
Sbjct: 136 LHGES--FPDALAHALKLAEEEGLTFV-PPFDDP-DVIAGQGTVAMEILRQHPGPLDAIF 191
Query: 181 SGIGTGGTVTGAGKYLKEHNPEIKLYGVEPVESAVL 216
+G GG + G Y+K PEIK+ GVEP +S L
Sbjct: 192 VPVGGGGLIAGIAAYVKYVRPEIKVIGVEPDDSNCL 227
>gnl|CDD|178165 PLN02550, PLN02550, threonine dehydratase.
Length = 591
Score = 56.1 bits (135), Expect = 3e-09
Identities = 50/212 (23%), Positives = 97/212 (45%), Gaps = 8/212 (3%)
Query: 6 SVIAKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGL 65
++++ V ++ ++PL ++ + ++ K E ++P S K R Y+M+A ++ L
Sbjct: 97 NILSAKVYDVAIESPLQLAKKLSERLGVKVLLKREDLQPVFSFKLRGAYNMMAKLPKEQL 156
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPA 125
+ +I ++GN G+A A G +I MP + + + GA +VL +
Sbjct: 157 ----DKGVICSSAGNHAQGVALSAQRLGCDAVIAMPVTTPEIKWQSVERLGATVVLVGDS 212
Query: 126 RGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGT 185
Q + R + F++P + T G EI + G + A+ +G
Sbjct: 213 YD---EAQAYAKQRALEEGRTFIPPFDHP-DVIAGQGTVGMEIVRQHQGPLHAIFVPVGG 268
Query: 186 GGTVTGAGKYLKEHNPEIKLYGVEPVESAVLS 217
GG + G Y+K PE+K+ GVEP ++ ++
Sbjct: 269 GGLIAGIAAYVKRVRPEVKIIGVEPSDANAMA 300
>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 = 51.8 bits (125), Expect = 5e-08
Identities = 51/187 (27%), Positives = 83/187 (44%), Gaps = 18/187 (9%)
Query: 17 GKTPLVYLNRIVD-GCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIE 75
G TPLV R+ + + K E + P S KDR ++ A+E G +
Sbjct: 21 GNTPLVRAPRLGERLGGKNLYVKDEGLNPTGSFKDRGMTVAVSKAKELG-----VKAVAC 75
Query: 76 PTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARG--MKGAVQ 133
++GNT LA AA G + ++ +PA +L + LA+GA ++ + ++ +
Sbjct: 76 ASTGNTSASLAAYAARAGIKCVVFLPAGKALGKLAQALAYGATVLAVEGNFDDALRLVRE 135
Query: 134 KAEEIRDKTPNSYVLQQFENPANPKIH-YETTGPEIWKGTGGKI-DALVSGIGTGGTVTG 191
AEE N L NP ++ +T EI + G ++ D +V +G GG +T
Sbjct: 136 LAEE------NWIYLSNSLNPY--RLEGQKTIAFEIAEQLGWEVPDYVVVPVGNGGNITA 187
Query: 192 AGKYLKE 198
K KE
Sbjct: 188 IWKGFKE 194
>gnl|CDD|235842 PRK06608, PRK06608, threonine dehydratase; Provisional.
Length = 338
Score = 51.3 bits (123), Expect = 1e-07
Identities = 49/204 (24%), Positives = 97/204 (47%), Gaps = 21/204 (10%)
Query: 16 IGKTPLVY---LNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESV 72
+ TP+V+ LN ++ I K+E ++ + K R + + + +E+G + + +
Sbjct: 21 LHLTPIVHSESLNEMLG---HEIFFKVESLQKTGAFKVRGVLNHLLELKEQG--KLPDKI 75
Query: 73 LIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAV 132
+ ++GN G +A+ + G + I +P + S ++ L +G E++LT R + A
Sbjct: 76 -VAYSTGNHGQAVAYASKLFGIKTRIYLPLNTSKVKQQAALYYGGEVILT-NTR--QEAE 131
Query: 133 QKAEEIRDKTPNSYVLQQFENPANPKIHYE-TTGPEIWKGTGGKIDALVSGIGTGGTVTG 191
+KA+E D+ Y + ++ + I T E + G DA+ + G GG ++G
Sbjct: 132 EKAKE--DEEQGFYYIHPSDSDS--TIAGAGTLCYEALQQLGFSPDAIFASCGGGGLISG 187
Query: 192 AGKYLKEH--NPEIKLYGVEPVES 213
YL + +P L G EP+ +
Sbjct: 188 T--YLAKELISPTSLLIGSEPLNA 209
>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 = 48.6 bits (116), Expect = 9e-07
Identities = 53/207 (25%), Positives = 88/207 (42%), Gaps = 15/207 (7%)
Query: 9 AKDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRP 68
K + E++ TPL R+ + A I K E ++P S K R Y+ + + L
Sbjct: 7 RKRLKEVVPHTPLQLNERLSEKYGANIYLKREDLQPVRSYKIRGAYNFLKQLSDAQL--- 63
Query: 69 GESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAE---LVLT-DP 124
++ ++GN G A+ G + MPA+ ++ + FG E ++L D
Sbjct: 64 -AKGVVCASAGNHAQGFAYACRHLGVHGTVFMPATTPKQKIDRVKIFGGEFIEIILVGDT 122
Query: 125 ARGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYE-TTGPEIWKGTGGKIDALVSGI 183
A ++ E T + F++P I + T EI K D +V +
Sbjct: 123 FDQCAAAAREHVEDHGGT----FIPPFDDPR--IIEGQGTVAAEILDQLPEKPDYVVVPV 176
Query: 184 GTGGTVTGAGKYLKEHNPEIKLYGVEP 210
G GG ++G YL +P+ K+ GVEP
Sbjct: 177 GGGGLISGLTTYLAGTSPKTKIIGVEP 203
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 48.2 bits (116), Expect = 1e-06
Identities = 59/211 (27%), Positives = 97/211 (45%), Gaps = 32/211 (15%)
Query: 18 KTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIA----DAEEKGLIRPGESVL 73
+TPL ++ ++ K E ++P S K R Y+ +A + +G+I
Sbjct: 20 ETPLEKAPKLSARLGNQVLLKREDLQPVFSFKLRGAYNKMAQLTEEQLARGVI------- 72
Query: 74 IEPTS--GNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKG- 130
T+ GN G+A AA G + +I MP + + + AFG E+VL G
Sbjct: 73 ---TASAGNHAQGVALSAARLGIKAVIVMPVTTPDIKVDAVRAFGGEVVL-------HGD 122
Query: 131 ----AVQKAEEIRDKTPNSYVLQQFENPANPKIHYE-TTGPEIWKGTGGKIDALVSGIGT 185
A A E+ ++ +++ F++P I + T EI + +DA+ +G
Sbjct: 123 SFDEAYAHAIELAEEEGLTFI-HPFDDPD--VIAGQGTIAMEILQQHPHPLDAVFVPVGG 179
Query: 186 GGTVTGAGKYLKEHNPEIKLYGVEPVESAVL 216
GG + G Y+K+ PEIK+ GVEP +SA L
Sbjct: 180 GGLIAGVAAYIKQLRPEIKVIGVEPEDSACL 210
>gnl|CDD|180709 PRK06815, PRK06815, hypothetical protein; Provisional.
Length = 317
Score = 47.4 bits (113), Expect = 2e-06
Identities = 50/205 (24%), Positives = 84/205 (40%), Gaps = 23/205 (11%)
Query: 19 TPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESV---LIE 75
TPL + + + K E ++ S K R A K + +I
Sbjct: 21 TPLEHSPLLSQHTGCEVYLKCEHLQHTGSFKFR-------GASNKLRLLNEAQRQQGVIT 73
Query: 76 PTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAEL-VLTDPARGMKGAVQK 134
+SGN G G+A A G + + P S + + A GAE+ + A + A ++
Sbjct: 74 ASSGNHGQGVALAAKLAGIPVTVYAPEQASAIKLDAIRALGAEVRLYGGDALNAELAARR 133
Query: 135 AEEIRDKTPNSYVLQQFENPAN-PKI--HYETTGPEIWKGTGGKIDALVSGIGTGGTVTG 191
A E + K + +P N P++ T G E+ + +DA+ +G GG ++G
Sbjct: 134 AAEQQGKV--------YISPYNDPQVIAGQGTIGMELVE-QQPDLDAVFVAVGGGGLISG 184
Query: 192 AGKYLKEHNPEIKLYGVEPVESAVL 216
YLK +P+ ++ G P S L
Sbjct: 185 IATYLKTLSPKTEIIGCWPANSPSL 209
>gnl|CDD|180550 PRK06382, PRK06382, threonine dehydratase; Provisional.
Length = 406
Score = 47.6 bits (113), Expect = 2e-06
Identities = 49/197 (24%), Positives = 87/197 (44%), Gaps = 15/197 (7%)
Query: 16 IGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDR---IGYSMIADAEEKGLIRPGESV 72
+ +TPL++ D I KLE + S K R +S +++ E + +
Sbjct: 23 LNRTPLIHSTTFGDEYGGDIYFKLENFQKTGSFKSRGAVFKFSKLSEDELRNGV------ 76
Query: 73 LIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAV 132
I ++GN G+A+ A+ G I MP ++ + A+GA ++LT R A
Sbjct: 77 -ITASAGNHAQGVAYAASINGIDAKIVMPEYTIPQKVNAVEAYGAHVILT--GRDYDEAH 133
Query: 133 QKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGA 192
+ A++I N ++ F + T G EI + +D ++ +G GG ++G
Sbjct: 134 RYADKIA-MDENRTFIEAFNDRWVISGQ-GTIGLEIMEDLP-DLDQIIVPVGGGGLISGI 190
Query: 193 GKYLKEHNPEIKLYGVE 209
K NP +K+ G+E
Sbjct: 191 ALAAKHINPNVKIIGIE 207
>gnl|CDD|181457 PRK08526, PRK08526, threonine dehydratase; Provisional.
Length = 403
Score = 47.8 bits (114), Expect = 2e-06
Identities = 57/224 (25%), Positives = 95/224 (42%), Gaps = 39/224 (17%)
Query: 1 MVEEKSVI-AKD-VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIA 58
M+E + AK ++ + KTP Y + A + K E ++ + K R Y+ IA
Sbjct: 1 MLELNKIYQAKQRISGFVNKTPFAYAPFLSKISGAEVYLKKENLQITGAYKIRGAYNKIA 60
Query: 59 DAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAE 118
+ E+ + +I ++GN G+A A G + +I MP + L + A GAE
Sbjct: 61 NLSEEQ----KQHGVIAASAGNHAQGVAISAKKFGIKAVIVMPEATPLLKVSGTKALGAE 116
Query: 119 LVLT----DPARGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTG- 173
++L D A A++ A+E + T F +P + E+ G G
Sbjct: 117 VILKGDNYDEAYAF--ALEYAKE-NNLT--------FIHPFEDE--------EVMAGQGT 157
Query: 174 ---------GKIDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGV 208
+D +V +G GG ++G K+ NP IK+ GV
Sbjct: 158 IALEMLDEISDLDMVVVPVGGGGLISGIASAAKQINPNIKIIGV 201
>gnl|CDD|235789 PRK06381, PRK06381, threonine synthase; Validated.
Length = 319
Score = 47.4 bits (113), Expect = 2e-06
Identities = 54/198 (27%), Positives = 78/198 (39%), Gaps = 23/198 (11%)
Query: 1 MVEEKSVIAKDVTELIGKTPLV---YLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMI 57
M EE S + G TPL+ L + + +I K E P + KDRI + +
Sbjct: 1 MEEELS---SSEEKPPGGTPLLRARKLEEELG--LRKIYLKFEGANPTGTQKDRIAEAHV 55
Query: 58 ADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGA 117
A +R G S + T GN G +A+ A G + +I +P S S R + +GA
Sbjct: 56 RRA-----MRLGYSGITVGTCGNYGASIAYFARLYGLKAVIFIPRSYSNSRVKEMEKYGA 110
Query: 118 ELVLTD----PARGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTG 173
E++ D A K I D P S N Y EI++ G
Sbjct: 111 EIIYVDGKYEEAVERSRKFAKENGIYDANPGS------VNSVVDIEAYSAIAYEIYEALG 164
Query: 174 GKIDALVSGIGTGGTVTG 191
DA+ +G G T+ G
Sbjct: 165 DVPDAVAVPVGNGTTLAG 182
>gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed.
Length = 352
Score = 44.7 bits (105), Expect = 2e-05
Identities = 53/195 (27%), Positives = 82/195 (42%), Gaps = 15/195 (7%)
Query: 11 DVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGE 70
DV+ + G TPL+ L I ++ K E P S KDR +A A+E+ G
Sbjct: 21 DVSLMEGNTPLIPLLNISKQLGIQLYGKYEGANPTGSFKDRGMVMAVAKAKEE-----GS 75
Query: 71 SVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMV-LLAFGAELVLTDPARGMK 129
+I ++GNT A AA G + II +P ++ +A+GAE++ +
Sbjct: 76 EAIICASTGNTSASAAAYAARLGMKCIIVIPEGKIAHGKLAQAVAYGAEIISIEG--NFD 133
Query: 130 GAVQKAEEIRDKTPNSYVLQQFENPANP-KIHYETTGP-EIWKGTGGKIDALVSGIGTGG 187
A++ I + P + V N NP +I + T EI D L +G G
Sbjct: 134 DALKAVRNIAAEEPITLV-----NSVNPYRIEGQKTAAFEICDQLQRAPDVLAIPVGNAG 188
Query: 188 TVTGAGKYLKEHNPE 202
+T K E+ E
Sbjct: 189 NITAYWKGFCEYEKE 203
>gnl|CDD|236244 PRK08329, PRK08329, threonine synthase; Validated.
Length = 347
Score = 44.0 bits (104), Expect = 2e-05
Identities = 27/89 (30%), Positives = 49/89 (55%), Gaps = 5/89 (5%)
Query: 38 KLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLI 97
KL+ ++P S KDR Y +A +E+G+ V+I+ +SGN + LA + ++G ++
Sbjct: 77 KLDYLQPTGSFKDRGTYVTVAKLKEEGI----NEVVID-SSGNAALSLALYSLSEGIKVH 131
Query: 98 ITMPASMSLERRMVLLAFGAELVLTDPAR 126
+ + + S E+ +L GAEL + R
Sbjct: 132 VFVSYNASKEKISLLSRLGAELHFVEGDR 160
>gnl|CDD|236317 PRK08638, PRK08638, threonine dehydratase; Validated.
Length = 333
Score = 42.8 bits (101), Expect = 6e-05
Identities = 59/211 (27%), Positives = 89/211 (42%), Gaps = 31/211 (14%)
Query: 10 KDVTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGY---SMIADAE-EKGL 65
+ + I KTPL N + + C I KLE M+ S K R + S + DAE KG+
Sbjct: 19 QRLAGRIRKTPLPRSNYLSERCKGEIFLKLENMQRTGSFKIRGAFNKLSSLTDAEKRKGV 78
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPA 125
+ ++GN G+A A G + MP + +GAE+VL
Sbjct: 79 V--------ACSAGNHAQGVALSCALLGIDGKVVMPKGAPKSKVAATCGYGAEVVLH--G 128
Query: 126 RGMKGAVQKAEEIRDKTPNSYVLQQFENPAN-PKI--HYETTGPEI----WKGTGGKIDA 178
+ K EEI ++ +++ P + PK+ T G EI W +D
Sbjct: 129 DNFNDTIAKVEEIVEEEGRTFI-----PPYDDPKVIAGQGTIGLEILEDLWD-----VDT 178
Query: 179 LVSGIGTGGTVTGAGKYLKEHNPEIKLYGVE 209
++ IG GG + G LK NP I + GV+
Sbjct: 179 VIVPIGGGGLIAGIAVALKSINPTIHIIGVQ 209
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 42.4 bits (100), Expect = 7e-05
Identities = 37/112 (33%), Positives = 56/112 (50%), Gaps = 8/112 (7%)
Query: 38 KLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLI 97
KL+ + P S KDR ++I+ EKG+ + E +SGN G +A AA G +
Sbjct: 70 KLDFLNPTGSYKDRGSVTLISYLAEKGI-----KQISEDSSGNAGASIAAYGAAAGIEVK 124
Query: 98 ITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEEIRDKTPNSYVLQ 149
I +P + S + + ++GAE+V RG + V KA E S+VLQ
Sbjct: 125 IFVPETASGGKLKQIESYGAEVV---RVRGSREDVAKAAENSGYYYASHVLQ 173
>gnl|CDD|236318 PRK08639, PRK08639, threonine dehydratase; Validated.
Length = 420
Score = 42.5 bits (101), Expect = 8e-05
Identities = 63/249 (25%), Positives = 105/249 (42%), Gaps = 48/249 (19%)
Query: 1 MVEEKSVIAKDVTE-------LIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIG 53
M + +V AKD+ + ++ +TPL + + + A + K E ++P S K R
Sbjct: 1 MTVKMTVSAKDIDKAAKRLKDVVPETPLQRNDYLSEKYGANVYLKREDLQPVRSYKLRGA 60
Query: 54 YSMIA--DAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMV 111
Y+ I+ EE + ++ ++GN G+A+ G +I MP + ++
Sbjct: 61 YNAISQLSDEEL------AAGVVCASAGNHAQGVAYACRHLGIPGVIFMPVTTPQQKIDQ 114
Query: 112 LLAFGA---ELVLT----DPARGMKGAVQKAEEIRDKTPNSYVLQQFENP------ANPK 158
+ FG E+VL D + A + AEE + + F++P
Sbjct: 115 VRFFGGEFVEIVLVGDTFDDS--AAAAQEYAEET-----GATFIPPFDDPDVIAGQG--- 164
Query: 159 IHYETTGPEIWK--GTGGKIDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEPVE---- 212
T EI + G D + +G GG ++G YLKE +P+ K+ GVEP
Sbjct: 165 ----TVAVEILEQLEKEGSPDYVFVPVGGGGLISGVTTYLKERSPKTKIIGVEPAGAASM 220
Query: 213 SAVLSGGKP 221
A L GKP
Sbjct: 221 KAALEAGKP 229
>gnl|CDD|223572 COG0498, ThrC, Threonine synthase [Amino acid transport and
metabolism].
Length = 411
Score = 42.3 bits (100), Expect = 8e-05
Identities = 27/108 (25%), Positives = 44/108 (40%), Gaps = 9/108 (8%)
Query: 17 GKTPLVYLNRIVDG---CVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVL 73
G TPL + + K P S KDR +++ A+E G +
Sbjct: 75 GGTPLYKAPALAAPLGVLNDNLYVKELGHNPTGSFKDRGMTVLVSLAKELGAK-----TI 129
Query: 74 IEPTSGNTGIGLAFMAAAKGYRLIITMPAS-MSLERRMVLLAFGAELV 120
+ +SGNTG A AA G ++ + P +S + +L GA ++
Sbjct: 130 LCASSGNTGASAAAYAARAGLKVFVLYPKGKVSPGKLAQMLTLGAHVI 177
>gnl|CDD|235699 PRK06110, PRK06110, hypothetical protein; Provisional.
Length = 322
Score = 40.7 bits (96), Expect = 2e-04
Identities = 19/54 (35%), Positives = 26/54 (48%)
Query: 67 RPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELV 120
P +I T GN G +AF A G I +P S+E+ + A GAEL+
Sbjct: 67 GPRVRGVISATRGNHGQSVAFAARRHGLAATIVVPHGNSVEKNAAMRALGAELI 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 = 38.5 bits (90), Expect = 0.001
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 69 GESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTD 123
G+ + T GN G G+A+ A G + ++ MP + ER + A GAE +TD
Sbjct: 112 GDITFVTATDGNHGRGVAWAANQLGQKSVVYMPKGSAQERLENIRAEGAECTITD 166
>gnl|CDD|181319 PRK08246, PRK08246, threonine dehydratase; Provisional.
Length = 310
Score = 38.4 bits (90), Expect = 0.002
Identities = 48/215 (22%), Positives = 83/215 (38%), Gaps = 41/215 (19%)
Query: 15 LIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLI 74
I +TP++ A + KLE ++ S K R ++ + A P V+
Sbjct: 20 HIRRTPVLEA-DGAGFGPAPVWLKLEHLQHTGSFKARGAFNRLLAAPV-----PAAGVVA 73
Query: 75 EPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDP--ARGMKGAV 132
+ GN G+ +A+ AAA G + +P + + L A GAE+V+ A ++ A
Sbjct: 74 -ASGGNAGLAVAYAAAALGVPATVFVPETAPPAKVARLRALGAEVVVVGAEYADALEAAQ 132
Query: 133 QKAEEIRDKTPNSYVLQQFENPANPKIH-YETTGPEIWKGTG----------GKIDALVS 181
A E + L H Y+ PE+ G G +D ++
Sbjct: 133 AFAAE-------TGALL---------CHAYDQ--PEVLAGAGTLGLEIEEQAPGVDTVLV 174
Query: 182 GIGTGGTVTGAGKYLKEHNPEIKLYGVEPVESAVL 216
+G GG + G + + ++ VEP + L
Sbjct: 175 AVGGGGLIAGIAAWFEGR---ARVVAVEPEGAPTL 206
>gnl|CDD|180539 PRK06352, PRK06352, threonine synthase; Validated.
Length = 351
Score = 38.1 bits (88), Expect = 0.002
Identities = 52/213 (24%), Positives = 89/213 (41%), Gaps = 20/213 (9%)
Query: 17 GKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEP 76
G TPL+ L + + K E + P S KDR +A A+E+ G +I
Sbjct: 27 GNTPLIPLPNLSKELGVTLYGKYEGLNPTGSFKDRGMVMAVAKAKEE-----GAEAVICA 81
Query: 77 TSGNTGIGLAFMAAAKGYRLIITMP-ASMSLERRMVLLAFGAELVLTDPARGMKGAVQKA 135
++GNT A A G + I +P ++L + + +GA+++ A++
Sbjct: 82 STGNTSAAAAAYATRAGLKAYIVIPEGKVALGKLAQAVMYGADII--SIQGNFDEALKSV 139
Query: 136 EEIRDKTPNSYVLQQFENPANP-KIHYETTGP-EIWKGTGGKIDALVSGIGTGGTVTGAG 193
E+ + + V N NP ++ + T EI + G D L +G G ++
Sbjct: 140 RELAETEAVTLV-----NSVNPYRLEGQKTAAFEICEQLGSAPDVLAIPVGNAGNISAYW 194
Query: 194 KYLKEHNPEI-----KLYGVEPVESAVLSGGKP 221
K KE N +++G E +A + GKP
Sbjct: 195 KGFKEWNEAKASGLPRMHGFEAEGAAAIVQGKP 227
>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 = 37.6 bits (87), Expect = 0.003
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 69 GESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTD 123
G++ T GN G G+A+ A G + ++ MP + ER +L GAE +TD
Sbjct: 93 GQATFATATDGNHGRGVAWAAQQLGQKAVVYMPKGSAQERVENILNLGAECTITD 147
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 36.9 bits (86), Expect = 0.005
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 9/87 (10%)
Query: 61 EEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELV 120
++ ++PGE+VL+ +G G +A A G ++ S E+ +L GA+ V
Sbjct: 135 FDRAGLKPGETVLVHGAAGGVGSAAIQLAKALGATVVAV---VSSSEKLELLKELGADHV 191
Query: 121 LTDPARGMKGAVQKAEEIRDKTPNSYV 147
+ E++R+ T V
Sbjct: 192 INYREEDF------VEQVRELTGGKGV 212
>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 = 36.8 bits (86), Expect = 0.006
Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 62 EKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVL 121
E +RPG+SVLI S + G+ +A A G +I T + + E+R LLA GA V+
Sbjct: 138 ELAGLRPGDSVLITAASSSVGLAAIQIANAAGATVIAT---TRTSEKRDALLALGAAHVI 194
>gnl|CDD|236186 PRK08206, PRK08206, diaminopropionate ammonia-lyase; Provisional.
Length = 399
Score = 36.8 bits (86), Expect = 0.006
Identities = 20/47 (42%), Positives = 27/47 (57%)
Query: 77 TSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTD 123
T GN G G+A+ A G + +I MP S ER + A GAE ++TD
Sbjct: 123 TDGNHGRGVAWAAQQLGQKAVIYMPKGSSEERVDAIRALGAECIITD 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 = 36.1 bits (84), Expect = 0.009
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 8/64 (12%)
Query: 60 AEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAK--GYRLIITMPASMSLERRMVLLAFGA 117
G+++PG++VL+ G G+GL AK G R+I+T S E+ + GA
Sbjct: 126 LRRAGVLKPGDTVLVL---GAGGVGLLAAQLAKAAGARVIVT---DRSDEKLELAKELGA 179
Query: 118 ELVL 121
+ V+
Sbjct: 180 DHVI 183
>gnl|CDD|181283 PRK08197, PRK08197, threonine synthase; Validated.
Length = 394
Score = 35.7 bits (83), Expect = 0.013
Identities = 39/109 (35%), Positives = 52/109 (47%), Gaps = 8/109 (7%)
Query: 17 GKTPLVYLNRIVDGC-VARIAAKLEMMEPCSSVKDRIGYSM-IADAEEKGLIRPGESVLI 74
G TPL+ L R+ + R+ K E + P S K R G ++ ++ A+E G+ L
Sbjct: 78 GMTPLLPLPRLGKALGIGRLWVKDEGLNPTGSFKAR-GLAVGVSRAKELGV-----KHLA 131
Query: 75 EPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTD 123
PT+GN G A AA G R I MPA R+ GAEL L D
Sbjct: 132 MPTNGNAGAAWAAYAARAGIRATIFMPADAPEITRLECALAGAELYLVD 180
>gnl|CDD|235994 PRK07334, PRK07334, threonine dehydratase; Provisional.
Length = 403
Score = 35.3 bits (82), Expect = 0.019
Identities = 51/212 (24%), Positives = 83/212 (39%), Gaps = 47/212 (22%)
Query: 18 KTPLVY---LNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIA--DAEEKGLIRPGESV 72
+TP V+ L++I A + K E ++ +S K+R + + EE+
Sbjct: 23 RTPCVHSRTLSQITG---AEVWLKFENLQFTASFKERGALNKLLLLTEEER------ARG 73
Query: 73 LIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLT----DPARGM 128
+I ++GN G+A+ A G I MP + FGAE+VL D AR
Sbjct: 74 VIAMSAGNHAQGVAYHAQRLGIPATIVMPRFTPTVKVERTRGFGAEVVLHGETLDEARAH 133
Query: 129 KGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTG----------GKIDA 178
+ + E + F +P + P + G G +D
Sbjct: 134 ARELAEEEGL-----------TFVHPYD--------DPAVIAGQGTVALEMLEDAPDLDT 174
Query: 179 LVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEP 210
LV IG GG ++G K P+I++ GV+
Sbjct: 175 LVVPIGGGGLISGMATAAKALKPDIEIIGVQT 206
>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 = 35.0 bits (81), Expect = 0.022
Identities = 55/225 (24%), Positives = 89/225 (39%), Gaps = 53/225 (23%)
Query: 18 KTPL---VYLNRIVDGCVARIAAKLEMMEPCSSVKDR-IGYSMIADAEEKGLIRPGESVL 73
KTPL L++ GC + KLE ++P S K R IG+ A++ +
Sbjct: 1 KTPLIESTALSKTA-GC--NVFLKLENLQPSGSFKIRGIGHLCQKSAKQ---GLNECVHV 54
Query: 74 IEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMV--LLAFGAELVLTDPARGMKGA 131
+ + GN G+ A+ A G I +P S R+V L GA +V+ G
Sbjct: 55 VCSSGGNAGLAAAYAARKLGVPCTIVVPESTK--PRVVEKLRDEGATVVV-------HGK 105
Query: 132 VQK------AEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKG-------------T 172
V EE+ + P + F++P IW+G +
Sbjct: 106 VWWEADNYLREELAENDPGPVYVHPFDDP------------LIWEGHSSMVDEIAQQLQS 153
Query: 173 GGKIDALVSGIGTGGTVTGAGKYLKEHNP-EIKLYGVEPVESAVL 216
K+DA+V +G GG + G + L+ + +I + VE + L
Sbjct: 154 QEKVDAIVCSVGGGGLLNGIVQGLERNGWGDIPVVAVETEGAHSL 198
>gnl|CDD|236182 PRK08198, PRK08198, threonine dehydratase; Provisional.
Length = 404
Score = 35.1 bits (82), Expect = 0.024
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 176 IDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEP 210
+D +V IG GG ++G +K PE+++ GV+
Sbjct: 171 VDTVVVPIGGGGLISGVATAVKALRPEVRVIGVQA 205
>gnl|CDD|235918 PRK07048, PRK07048, serine/threonine dehydratase; Validated.
Length = 321
Score = 34.6 bits (80), Expect = 0.025
Identities = 49/206 (23%), Positives = 79/206 (38%), Gaps = 35/206 (16%)
Query: 18 KTPLVYLNRIVDGCV-ARIAAKLEMMEPCSSVKDRIGYSMIA--DAEEKGLIRPGESVLI 74
+TP V +R D A++ K E + + K R Y+ ++ E++ R G ++
Sbjct: 24 RTP-VLTSRTADARTGAQVFFKCENFQRMGAFKFRGAYNALSQFSPEQR---RAG---VV 76
Query: 75 EPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQK 134
+SGN +A A G I MP + +G E+V D
Sbjct: 77 TFSSGNHAQAIALSARLLGIPATIVMPQDAPAAKVAATRGYGGEVVTYDRY--------- 127
Query: 135 AEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWKGTG----------GKIDALVSGIG 184
E R++ ++ P H P + G G G +DAL +G
Sbjct: 128 -TEDREEIGRRLAEERGLTLIPPYDH-----PHVIAGQGTAAKELFEEVGPLDALFVCLG 181
Query: 185 TGGTVTGAGKYLKEHNPEIKLYGVEP 210
GG ++G + +P K+YGVEP
Sbjct: 182 GGGLLSGCALAARALSPGCKVYGVEP 207
>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 = 0.030
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDP 124
++PG+++LI G + +GLA + AK +T + S ER +L GA+ V+ D
Sbjct: 140 LQPGDTLLIR--GGTSSVGLAALKLAKALGATVT-ATTRSPERAALLKELGADEVVIDD 195
>gnl|CDD|235757 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 33.4 bits (77), Expect = 0.085
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 12/90 (13%)
Query: 17 GKTPLVYLNRIVDGC-VARIAAKLEMMEPCSSVKDR---IGYSMIADAEEKGLIRPGESV 72
G TPL + V + K E P S KDR +G + A E G+
Sbjct: 66 GGTPLYRCPNLEKELGVKELYVKHEGANPTGSFKDRGMTVGVTK---ALELGV-----KT 117
Query: 73 LIEPTSGNTGIGLAFMAAAKGYRLIITMPA 102
+ ++GNT LA AA G + + +PA
Sbjct: 118 VACASTGNTSASLAAYAARAGLKCYVLLPA 147
>gnl|CDD|236013 PRK07409, PRK07409, threonine synthase; Validated.
Length = 353
Score = 33.2 bits (77), Expect = 0.085
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 12 VTELIGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSM-IADAEEKGLIRPGE 70
VT G TPL+ + + + K E + P S KDR G +M + A+E+G +
Sbjct: 25 VTLGEGNTPLIPAPNLSELLGVEVYVKYEGLNPTGSFKDR-GMTMAVTKAKEEG----AK 79
Query: 71 SVLIEPTSGNTGIGLAFMAAAKGYRLIITMP 101
+V+ T GNT A AA G + + +P
Sbjct: 80 AVICAST-GNTSASAAAYAARAGLKAFVLIP 109
>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 = 32.4 bits (74), Expect = 0.17
Identities = 30/111 (27%), Positives = 45/111 (40%), Gaps = 7/111 (6%)
Query: 12 VTELIGKTPLVYLNRIVDGC-VARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGE 70
V G TPL +V + + P S KDR + A E G
Sbjct: 17 VDLGEGVTPLFRSPALVANVGIKNLYVLELFHNPTLSFKDRGMAVALTKALELGND---- 72
Query: 71 SVLIEPTSGNTGIGLAFMAAAKGYRLIITMPA-SMSLERRMVLLAFGAELV 120
++ ++GNTG A A G +++I PA +SL + L + AE+V
Sbjct: 73 -TVLCASTGNTGAAAAAYAGKAGVKVVILYPAGKISLGKLAQALGYNAEVV 122
>gnl|CDD|176223 cd08262, Zn_ADH8, 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. 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 = 341
Score = 31.9 bits (73), Expect = 0.20
Identities = 33/111 (29%), Positives = 49/111 (44%), Gaps = 16/111 (14%)
Query: 26 RIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGL 85
R+ DG AA + EP + +G + A + PGE L+ G G+ +
Sbjct: 131 RVPDGLSMEDAA---LTEPLA-----VGLHAVRRAR----LTPGEVALV-IGCGPIGLAV 177
Query: 86 AFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAE 136
A+G I+ + S ERR + LA GA++V+ DPA A AE
Sbjct: 178 IAALKARGVGPIVA--SDFSPERRALALAMGADIVV-DPAADSPFAAWAAE 225
>gnl|CDD|176781 cd08803, Death_ank3, Death domain of Ankyrin-3. Death Domain (DD)
of the human protein ankyrin-3 (ANK-3) and related
proteins. Ankyrins are modular proteins comprising three
conserved domains, an N-terminal membrane-binding domain
containing ANK repeats, a spectrin-binding domain and a
C-terminal DD. ANK-3, also called anykyrin-G (for
general or giant), is found in neurons and at least one
splice variant has been shown to be essential for
propagation of action potentials as a binding partner to
neurofascin and voltage-gated sodium channels. It is
required for maintaining axo-dendritic polarity, and may
be a genetic risk factor associated with bipolar
disorder. ANK-3 may also play roles in other cell types.
Mutations affecting ANK-3 pathways for Na channel
localization are associated with Brugada syndrome, a
potentially fata arrythmia. In general, DDs are
protein-protein interaction domains found in a variety
of domain architectures. Their common feature is that
they form homodimers by self-association or heterodimers
by associating with other members of the DD superfamily
including CARD (Caspase activation and recruitment
domain), DED (Death Effector Domain), and PYRIN. They
serve as adaptors in signaling pathways and can recruit
other proteins into signaling complexes.
Length = 84
Score = 30.0 bits (67), Expect = 0.21
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 109 RMVLLAFGAELVLTDPARGMKGAVQKAEEIRDKTPNSYVLQQF 151
RM ++A L T+ AR + +V + +IR + PNS + Q F
Sbjct: 6 RMAIVADHLGLSWTELARELNFSVDEINQIRVENPNSLIAQSF 48
>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 = 31.8 bits (73), Expect = 0.21
Identities = 27/72 (37%), Positives = 35/72 (48%), Gaps = 8/72 (11%)
Query: 72 VLIEPTSGNTGIG--LAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELV---LTDPAR 126
VLI S GIG LA AA+GYR+I T LE LL E++ +TD
Sbjct: 3 VLITGCSS--GIGLALALALAAQGYRVIATARNPDKLESLGELLNDNLEVLELDVTDEES 60
Query: 127 GMKGAVQKAEEI 138
+K AV++ E
Sbjct: 61 -IKAAVKEVIER 71
>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 = 31.0 bits (70), Expect = 0.45
Identities = 25/106 (23%), Positives = 45/106 (42%), Gaps = 8/106 (7%)
Query: 16 IGKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIA--DAEEKGLIRPGESVL 73
+ +TPLV + + C + KLE + S K R + + ++ +
Sbjct: 17 VEETPLVESPSLSELCGVPVHLKLEHRQTTGSFKLRGATNAVLSLSDTQRAA------GV 70
Query: 74 IEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAEL 119
+ ++GN G LA+ AA +G R I M + + + GAE+
Sbjct: 71 VAASTGNHGRALAYAAAEEGVRATICMSELVPQNKVDEIRRLGAEV 116
>gnl|CDD|223363 COG0286, HsdM, Type I restriction-modification system
methyltransferase subunit [Defense mechanisms].
Length = 489
Score = 31.2 bits (71), Expect = 0.47
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 184 GTGGTVTGAGKYLKEHNPEIKLYGVE 209
G+GG + A KYLK H EI +YG E
Sbjct: 196 GSGGMLLQAAKYLKRHQDEIFIYGQE 221
>gnl|CDD|235539 PRK05638, PRK05638, threonine synthase; Validated.
Length = 442
Score = 30.6 bits (69), Expect = 0.64
Identities = 23/104 (22%), Positives = 45/104 (43%), Gaps = 6/104 (5%)
Query: 17 GKTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEP 76
G TPL+ RI + + K E P S +DR+ ++ + + I
Sbjct: 65 GGTPLIR-ARISEKLGENVYIKDETRNPTGSFRDRLATVAVSYG-----LPYAANGFIVA 118
Query: 77 TSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELV 120
+ GN +A +A G + +P + + + ++AFGA+++
Sbjct: 119 SDGNAAASVAAYSARAGKEAFVVVPRKVDKGKLIQMIAFGAKII 162
>gnl|CDD|165588 PHA03344, PHA03344, US22 family homolog; Provisional.
Length = 672
Score = 30.8 bits (69), Expect = 0.70
Identities = 33/135 (24%), Positives = 52/135 (38%), Gaps = 28/135 (20%)
Query: 31 CVARIAAKLEMME-PCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMA 89
C AR + L E PC+ + D G + DAE GL E++ G A
Sbjct: 262 CAAR-SPDLHFRETPCAILMDEEGRFFLYDAESDGLFLAAENIDELAHKG-------LSA 313
Query: 90 AAKGYR---LIITMPASMSLERRMVLLAF--------------GAELVLTDPARGMKGAV 132
YR I++P + ++++ A G+ + L DPA G +
Sbjct: 314 CEPAYRDGGATISLPKPKTAVKKILSAAVIGLENVAAAATAFRGSAIALCDPASGREEIF 373
Query: 133 Q--KAEEIRDKTPNS 145
Q A +++ K P S
Sbjct: 374 QIFDASDLKRKPPFS 388
>gnl|CDD|215333 PLN02618, PLN02618, tryptophan synthase, beta chain.
Length = 410
Score = 30.1 bits (68), Expect = 0.87
Identities = 68/260 (26%), Positives = 102/260 (39%), Gaps = 59/260 (22%)
Query: 3 EEKSVIAKDVTELIGK-TPLVYLNRI------VDGCVARIAAKLEMMEPCSSVK--DRIG 53
EE + I KD +G+ TPL + R+ DG I K E + + K + +
Sbjct: 53 EELAGILKD---YVGRETPLYFAERLTEHYKRADGEGPEIYLKREDLNHTGAHKINNAVA 109
Query: 54 YSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLER----- 108
+++A K + ++ E +G G+ A + A G I+ M A +ER
Sbjct: 110 QALLAKRLGK------KRIIAETGAGQHGVATATVCARFGLECIVYMGAQ-DMERQALNV 162
Query: 109 -RMVLLAFGAELVLTDPARGMKGAVQKA--EEIRDKTPN----SYVLQQFENPA------ 155
RM LL GAE+ P ++ A E IRD N Y+L P
Sbjct: 163 FRMRLL--GAEV---RPVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMV 217
Query: 156 ---NPKIHYET--TGPEIWKGTGGKIDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEP 210
+ I ET E W GGK D LV+ +G G G + +++L GVE
Sbjct: 218 RDFHSVIGKETRRQAMEKW---GGKPDVLVACVGGGSNAMGLFHEFIDDE-DVRLIGVEA 273
Query: 211 V--------ESAVLSGGKPG 222
+A L+ G+ G
Sbjct: 274 AGFGLDSGKHAATLTKGEVG 293
>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 = 29.6 bits (67), Expect = 1.4
Identities = 34/130 (26%), Positives = 51/130 (39%), Gaps = 35/130 (26%)
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPA 125
+ PGE+V++ SGNTGI +A G +I ++ R+ L FGA+ V+
Sbjct: 160 LGPGETVVVFGASGNTGIFAVQLAKMMGAEVI-------AVSRKDWLKEFGADEVVDYDE 212
Query: 126 RGMKGAVQKAEEIRDKTPNSYVLQQFENPANPKIHYETTGPEIWK------GTGGKIDAL 179
+K +EI V+ N G W G GG++ +
Sbjct: 213 -----VEEKVKEITKMA--DVVI----NS---------LGSSFWDLSLSVLGRGGRL--V 250
Query: 180 VSGIGTGGTV 189
G TGG V
Sbjct: 251 TFGTLTGGEV 260
>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 = 1.5
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 7/73 (9%)
Query: 62 EKGLIRPGESVLIEPTSGNTGIGLAF--MAAAKGYRLIITMPASMSLERRMVLLAFGAEL 119
+ ++PGE+VL+ +G G+GLA +A A G R+I AS S E+ + A GA+
Sbjct: 133 RRARLQPGETVLVLGAAG--GVGLAAVQLAKALGARVIAA--AS-SEEKLALARALGADH 187
Query: 120 VLTDPARGMKGAV 132
V+ ++ V
Sbjct: 188 VIDYRDPDLRERV 200
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. 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 = 28.9 bits (66), Expect = 1.9
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 7/57 (12%)
Query: 66 IRPGESVLIEPTSGNTGIGLAF--MAAAKGYRLIITMPASMSLERRMVLLAFGAELV 120
++ GE+VLI G +G+G A +A A G R+I T A S E+ A GA++
Sbjct: 137 LKAGETVLI--HGGASGVGTAAIQLAKALGARVIAT--AG-SEEKLEACRALGADVA 188
>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 = 2.3
Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 23/121 (19%)
Query: 47 SVKDRIG-YSMIADAE----EKGLIRPGE--SVLIEP--------------TSGNTGIGL 85
S+K R G Y ++A AE E GL+ + S+L EP ++GN G+ +
Sbjct: 108 SIKARGGIYEVLAHAEKLALEAGLLTLDDDYSILAEPEFKQFFSRYSIAVGSTGNLGLSI 167
Query: 86 AFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEEIRDKTPNS 145
++AA G+++ + M A ++ L + G +V + G+ AV++ + PN
Sbjct: 168 GIISAALGFQVTVHMSADARQWKKDKLRSHGVTVVEYESDYGV--AVEEGRKAAQSDPNC 225
Query: 146 Y 146
Y
Sbjct: 226 Y 226
>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 = 28.7 bits (65), Expect = 2.3
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 63 KGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVL 121
+ + GE+VL+ SG G +A G R+I T AS + +V A GA+ V
Sbjct: 139 RAGAKAGETVLVHGGSGAVGHAAVQLARWAGARVIAT--ASSAEGAELVRQA-GADAVF 194
>gnl|CDD|215524 PLN02970, PLN02970, serine racemase.
Length = 328
Score = 28.9 bits (65), Expect = 2.3
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 176 IDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEP 210
+D ++ I GG ++G K P IK+ EP
Sbjct: 176 LDVIIVPISGGGLISGIALAAKAIKPSIKIIAAEP 210
>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 = 28.5 bits (64), Expect = 2.3
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 32 VARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAA 91
V R A L E C+ + + + DA + + GE +LI+ +G TG+ +A
Sbjct: 87 VVRKPASLSFEEACALP---VVFLTVIDAFARAGLAKGEHILIQTATGGTGLMAVQLARL 143
Query: 92 KG 93
KG
Sbjct: 144 KG 145
>gnl|CDD|176179 cd05195, enoyl_red, enoyl reductase of polyketide synthase.
Putative enoyl reductase of 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 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.
Length = 293
Score = 28.7 bits (65), Expect = 2.6
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 62 EKGLIRPGESVLIEPTSGNTGIGLA 86
+ ++ GESVLI + G+G A
Sbjct: 102 DLARLQKGESVLI--HAAAGGVGQA 124
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. 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 = 342
Score = 28.8 bits (65), Expect = 2.6
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 7/58 (12%)
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAK--GYRLIITMPASMSLERRMVLLAFGAELVL 121
+RPGE+VL+ +G+G A + AK G +I T + LER GA+ V+
Sbjct: 164 LRPGETVLV--HGAGSGVGSAAIQIAKLFGATVIATAGSEDKLER---AKELGADYVI 216
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 28.5 bits (64), Expect = 2.9
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 55 SMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLI 97
M+ + ++ GE+VL+ G GI +A A G ++I
Sbjct: 149 GMVYRGLRRAGVKKGETVLVTGAGGGVGIHAIQVAKALGAKVI 191
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 28.4 bits (64), Expect = 3.0
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 11/77 (14%)
Query: 69 GESVLIEPTSGNTGIGL--AFMAAAKGYRLIIT--MPASMSLERRMVLLAFGAE-LVLTD 123
G++ LI T G +GIGL A A+G R+ IT PAS+ R G LV+
Sbjct: 6 GKTALI--TGGTSGIGLETARQFLAEGARVAITGRDPASLEAARA----ELGESALVIRA 59
Query: 124 PARGMKGAVQKAEEIRD 140
A + A+ + +
Sbjct: 60 DAGDVAAQKALAQALAE 76
>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 = 28.4 bits (64), Expect = 3.2
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 55 SMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLA 114
A ++ ++ G++VL+ G GI +A A G R+I + S E+ +L
Sbjct: 149 GTAVHALKRAGVKKGDTVLVTGAGGGVGIHAIQLAKALGARVIA---VTRSPEKLKILKE 205
Query: 115 FGAELVLT 122
GA+ V+
Sbjct: 206 LGADYVID 213
>gnl|CDD|226759 COG4309, COG4309, Uncharacterized conserved protein [Function
unknown].
Length = 98
Score = 27.1 bits (60), Expect = 3.5
Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 6/72 (8%)
Query: 127 GMKGAVQKAEE---IRDKTPNSYVLQQF--ENPANPKIHYETTGPEIWKGTGGKIDALVS 181
M G +++ E I D P + Q E P Y GPE+W+ +++ S
Sbjct: 26 SMLGKLKEGESLEIISDHDP-RPLRYQLSTEFPGKFGWEYLENGPEVWRVEIKRLEENAS 84
Query: 182 GIGTGGTVTGAG 193
I +G
Sbjct: 85 IISSGCECCCGS 96
>gnl|CDD|223211 COG0133, TrpB, Tryptophan synthase beta chain [Amino acid transport
and metabolism].
Length = 396
Score = 28.3 bits (64), Expect = 3.8
Identities = 63/236 (26%), Positives = 106/236 (44%), Gaps = 47/236 (19%)
Query: 19 TPLVYLNRIVDGCVARIAAKLEMMEPCSSVK--DRIGYSMIADAEEKGLIRPGESVLIEP 76
TPL + R+ + A+I K E + + K + +G +++A R G++ +I
Sbjct: 57 TPLYFAERLTEHLGAKIYLKREDLNHTGAHKINNALGQALLAK-------RMGKTRIIAE 109
Query: 77 T-SGNTGIGLAFMAAAKGYRLIITMPASMSLER------RMVLLAFGAELV-LTDPARGM 128
T +G G+ A AA G +I M A +ER RM LL GAE+V +T + +
Sbjct: 110 TGAGQHGVATATAAALFGLECVIYMGAE-DVERQALNVFRMRLL--GAEVVPVTSGSGTL 166
Query: 129 KGAVQKAEEIRDKTPN----SYVLQQFENPANP---------KIHYETTGPEIWKGTGGK 175
K A+ +A +RD N Y++ P +P + E +I + G
Sbjct: 167 KDAINEA--LRDWVTNVEDTHYLIGSAAGP-HPYPTIVRDFQSVIGEEAKAQILEKEGRL 223
Query: 176 IDALVSGIGTGGTVTGA-GKYLKEHNPEIKLYGVEP----VES----AVLSGGKPG 222
DA+V+ +G G G ++ + ++L GVE +E+ A L+ G+PG
Sbjct: 224 PDAVVACVGGGSNAIGIFHPFIDD--ESVRLIGVEAAGKGIETGKHAATLTAGRPG 277
>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 = 28.1 bits (63), Expect = 3.9
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 23/121 (19%)
Query: 47 SVKDRIG-YSMIADAE----EKGLIRPGE--SVLIEPT--------------SGNTGIGL 85
S+K R G Y ++ AE E GL+ + S L +GN G+ +
Sbjct: 90 SIKARGGIYEVLKHAEKLALEHGLLTLEDDYSKLASEKFRKLFSQYSIAVGSTGNLGLSI 149
Query: 86 AFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEEIRDKTPNS 145
MAAA G+++ + M A ++ L + G +V + AV++ + P
Sbjct: 150 GIMAAALGFKVTVHMSADAKQWKKDKLRSKGVTVVEYETDYS--KAVEEGRKQAAADPMC 207
Query: 146 Y 146
Y
Sbjct: 208 Y 208
>gnl|CDD|236025 PRK07476, eutB, threonine dehydratase; Provisional.
Length = 322
Score = 28.0 bits (63), Expect = 4.3
Identities = 27/105 (25%), Positives = 45/105 (42%), Gaps = 4/105 (3%)
Query: 18 KTPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPT 77
+TPLV + + KLE ++P S K R + + + R ++ +
Sbjct: 19 RTPLVASASLSARAGVPVWLKLETLQPTGSFKLRGATNALLSLSAQERARG----VVTAS 74
Query: 78 SGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLT 122
+GN G LA+ A A G R I M + + + A GAE+ +
Sbjct: 75 TGNHGRALAYAARALGIRATICMSRLVPANKVDAIRALGAEVRIV 119
>gnl|CDD|213544 TIGR00636, PduO_Nterm, ATP:cob(I)alamin adenosyltransferase. This
model represents as ATP:cob(I)alamin adenosyltransferase
family corresponding to the N-terminal half of
Salmonella PduO, a 1,2-propanediol utilization protein
that probably is bifunctional. PduO represents one of at
least three families of ATP:corrinoid
adenosyltransferase: others are CobA (which partially
complements PduO) and EutT. It was not clear originally
whether ATP:cob(I)alamin adenosyltransferase activity
resides in the N-terminal region of PduO, modeled here,
but this has now become clear from the characterization
of MeaD from Methylobacterium extorquens [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 171
Score = 27.3 bits (61), Expect = 4.7
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 4 EKSVIAKDVTELIGKTPLVYLNRIVD 29
E+ V+A E I + LVYLNR+ D
Sbjct: 125 ERRVVALLKEEEINEVVLVYLNRLSD 150
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) 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 = 228
Score = 27.3 bits (61), Expect = 5.4
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 68 PGESVLIEPTSGNTGIGLAFMA--AAKGYRLIIT 99
G +VLI T G +GIGLA G +IIT
Sbjct: 4 TGNTVLI--TGGTSGIGLALARKFLEAGNTVIIT 35
>gnl|CDD|218484 pfam05185, PRMT5, PRMT5 arginine-N-methyltransferase. The human
homologue of yeast Skb1 (Shk1 kinase-binding protein 1)
is PRMT5, an arginine-N-methyltransferase. These
proteins appear to be key mitotic regulators. They play
a role in Jak signalling in higher eukaryotes.
Length = 445
Score = 27.6 bits (62), Expect = 5.4
Identities = 17/50 (34%), Positives = 24/50 (48%)
Query: 167 EIWKGTGGKIDALVSGIGTGGTVTGAGKYLKEHNPEIKLYGVEPVESAVL 216
K T + LV G G G V A K +E ++K+Y VE +AV+
Sbjct: 179 PEKKKTSSTLVILVVGAGRGPLVDRALKAAEETGRKVKIYAVEKNPNAVV 228
>gnl|CDD|217415 pfam03192, DUF257, Pyrococcus protein of unknown function,
DUF257.
Length = 208
Score = 27.2 bits (61), Expect = 6.3
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 66 IRPGESVLIEPTSGNTGIGLAFMAAAKGYR 95
I+ GE+VLIE +S ++ L K +
Sbjct: 7 IKFGETVLIEYSS-SSIPELLLYEIIKYAK 35
>gnl|CDD|173935 cd08176, LPO, Lactadehyde:propanediol oxidoreductase (LPO)
catalyzes the interconversion between L-lactaldehyde and
L-1,2-propanediol in Escherichia coli and other
enterobacteria. Lactadehyde:propanediol oxidoreductase
(LPO) is a member of the group III iron-activated
dehydrogenases which catalyze the interconversion
between L-lactaldehyde and L-1,2-propanediol in
Escherichia coli and other enterobacteria. L-Fucose and
L-rhamnose is used by Escherichia coli through an
inducible pathway mediated by the fucose regulon
comprising four linked oeprons fucO, fucA, fucPIK, and
fucR. The fucA-encoded aldolase catalyzes the formation
of dihydroxyacetone phosphate and L-lactaldehyde. Under
anaerobic conditions, with NADH as a cofactor,
lactaldehyde is converted by a fucO-encoded
Lactadehyde:propanediol oxidoreductase (LPO) to
L-1,2-propanediol, which is excreted as a fermentation
product. In mutant strains, E. coli adapted to grow on
L-1,2-propanediol, FucO catalyzes the oxidation of the
polyol to L-lactaldehyde. FucO is induced regardless of
the respiratory conditions of the culture, remains fully
active in the absence of oxygen. In the presence of
oxygen, this enzyme becomes oxidatively inactivated by a
metal-catalyzed oxidation mechanism. FucO is an
iron-dependent metalloenzyme that is inactivated by
other metals, such as zinc, copper, or cadmium. This
enzyme can also reduces glycol aldehyde with similar
efficiency. Beside L-1,2-propanediol, the enzyme is
also able to oxidize methanol as alternative substrates.
Length = 377
Score = 27.2 bits (61), Expect = 7.1
Identities = 27/113 (23%), Positives = 48/113 (42%), Gaps = 11/113 (9%)
Query: 109 RMVLLAFGAELVLTDPARGMKGAVQKAEEIRDKTPNSYVLQQFENP-ANPKIHYETTGPE 167
+ L F L++TD G V+K ++ D+ YV+ ++ NP I G
Sbjct: 22 ELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVI--YDGVKPNPTITNVKDGLA 79
Query: 168 IWKGTGGKIDALVSGIGTGGTVTGAGK---YLKEHNPEIKLY-GVEPVESAVL 216
++K D ++S IG GG+ K + + +I+ Y GV + +
Sbjct: 80 VFK--KEGCDFIIS-IG-GGSPHDCAKAIGIVATNGGDIRDYEGVAKSKKPAV 128
>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 = 27.4 bits (61), Expect = 7.4
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 69 GESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPAS 103
G L+ ++GNTG A ++A G +I+ +P S
Sbjct: 116 GGKTLVVASAGNTGRAFAEVSAITGQPVILVVPKS 150
>gnl|CDD|176237 cd08276, MDR7, 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 = 336
Score = 27.1 bits (61), Expect = 7.4
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 62 EKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIIT 99
G ++PG++VL++ T G + L F A A G R+I T
Sbjct: 154 GLGPLKPGDTVLVQGTGGVSLFALQF-AKAAGARVIAT 190
>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 = 27.3 bits (61), Expect = 8.2
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 4/61 (6%)
Query: 62 EKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVL 121
E+ + GE+VL+ SG G L +A +G +I A + + A GA+ V+
Sbjct: 171 ERAGVGAGETVLVTGASGGVGSALVQLAKRRGAIVI----AVAGAAKEEAVRALGADTVI 226
Query: 122 T 122
Sbjct: 227 L 227
>gnl|CDD|139997 PRK13938, PRK13938, phosphoheptose isomerase; Provisional.
Length = 196
Score = 26.6 bits (58), Expect = 8.7
Identities = 23/90 (25%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 46 SSVKDRIGYSMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLIITMPASMS 105
++V + Y + +G RPG+++ TSGN+ ++ + AAK R + +M+
Sbjct: 91 TAVANDYDYDTVFARALEGSARPGDTLFAISTSGNS---MSVLRAAKTARELGVTVVAMT 147
Query: 106 LERRMVLLAFGAELVLTDPARGMKGAVQKA 135
E L F A+ ++ P+R G +Q++
Sbjct: 148 GESGGQLAEF-ADFLINVPSRDT-GRIQES 175
>gnl|CDD|173127 PRK14664, PRK14664, tRNA-specific 2-thiouridylase MnmA;
Provisional.
Length = 362
Score = 26.8 bits (59), Expect = 9.1
Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 11/104 (10%)
Query: 3 EEKSVIAKDVTELIGKTPLVYLNRIVD-----GC---VARIAAKLEMMEPCSSVKDRIGY 54
++ +V+ D +L + L + IVD C RI + + PC + G
Sbjct: 255 QKNTVMLGDAEQLKAEYMLAEQDNIVDEQELFACPDLAVRIRYRSRPI-PCRVKRLEDGR 313
Query: 55 SMIADAEEKGLIRPGESVLIEPTSGNTGIGLAFMAAAKGYRLII 98
++ E I PG+S + G +G AF+A+ +G L+I
Sbjct: 314 LLVRFLAEASAIAPGQSAVF--YEGRRVLGGAFIASQRGIGLVI 355
>gnl|CDD|214840 smart00829, PKS_ER, Enoylreductase. Enoylreductase in Polyketide
synthases.
Length = 287
Score = 27.0 bits (61), Expect = 9.3
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 66 IRPGESVLIEPTSGNTGIGLA 86
+RPGESVLI + G+G A
Sbjct: 101 LRPGESVLIH--AAAGGVGQA 119
>gnl|CDD|236339 PRK08813, PRK08813, threonine dehydratase; Provisional.
Length = 349
Score = 26.9 bits (59), Expect = 9.4
Identities = 51/196 (26%), Positives = 78/196 (39%), Gaps = 19/196 (9%)
Query: 19 TPLVYLNRIVDGCVARIAAKLEMMEPCSSVKDRIGYSMIADAEEKGLIRPGESVLIEPTS 78
TPL Y R + KLE ++ S K R + + E+G RP +I ++
Sbjct: 40 TPLHYAERF------GVWLKLENLQRTGSYKVRGALNALLAGLERGDERP----VICASA 89
Query: 79 GNTGIGLAFMAAAKGYRLIITMPASMSLERRMVLLAFGAELVLTDPARGMKGAVQKAEEI 138
GN G+A+ A G + I MP + + +GA + A A E+
Sbjct: 90 GNHAQGVAWSAYRLGVQAITVMPHGAPQTKIAGVAHWGA--TVRQHGNSYDEAYAFAREL 147
Query: 139 RDKTPNSY-VLQQFENPANPKIHYETTGPEIWKGTGGKIDALVSGIGTGGTVTGAGKYLK 197
D+ N Y L F++P + T G E+ D ++ IG GG +G LK
Sbjct: 148 ADQ--NGYRFLSAFDDP-DVIAGQGTVGIEL---AAHAPDVVIVPIGGGGLASGVALALK 201
Query: 198 EHNPEIKLYGVEPVES 213
+ VE V+S
Sbjct: 202 SQGVRVVGAQVEGVDS 217
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.314 0.135 0.383
Gapped
Lambda K H
0.267 0.0902 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,821,750
Number of extensions: 1156748
Number of successful extensions: 1128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1070
Number of HSP's successfully gapped: 134
Length of query: 224
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 131
Effective length of database: 6,812,680
Effective search space: 892461080
Effective search space used: 892461080
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: 42 (21.9 bits)
S2: 57 (25.4 bits)