RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 025563
(251 letters)
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 365 bits (939), Expect = e-128
Identities = 168/224 (75%), Positives = 190/224 (84%), Gaps = 3/224 (1%)
Query: 7 MEDNHHKRAIKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIK 66
MED + IK D T+LIGNTPMVYLNN+VDGCVARIAAKLEMMEPC SVKDRIA SMIK
Sbjct: 1 MED---RCLIKNDVTELIGNTPMVYLNNIVDGCVARIAAKLEMMEPCSSVKDRIAYSMIK 57
Query: 67 DAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAE 126
DAE+KGLITPGKS LIE T GNTGIGLA I A RGYK+I+VMPS S+ERRI+LRALGAE
Sbjct: 58 DAEDKGLITPGKSTLIEATAGNTGIGLACIGAARGYKVILVMPSTMSLERRIILRALGAE 117
Query: 127 VYLADQAGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDI 186
V+L DQ+ G +G+L K EEILS TP G++ +QFENPANP+IHY TTGPEIW+DS G VDI
Sbjct: 118 VHLTDQSIGLKGMLEKAEEILSKTPGGYIPQQFENPANPEIHYRTTGPEIWRDSAGKVDI 177
Query: 187 LVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPG 230
LVAG+GTGGT TG G+FLKEKN +IKV VEP ESA+L+GGQPG
Sbjct: 178 LVAGVGTGGTATGVGKFLKEKNKDIKVCVVEPVESAVLSGGQPG 221
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 363 bits (934), Expect = e-127
Identities = 157/218 (72%), Positives = 186/218 (85%)
Query: 13 KRAIKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKG 72
K +I KD T+LIG TP+VYLNNVVDGCVARIAAKLEMMEPC SVKDRI SMI DAEEKG
Sbjct: 2 KSSIAKDVTELIGKTPLVYLNNVVDGCVARIAAKLEMMEPCSSVKDRIGYSMITDAEEKG 61
Query: 73 LITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQ 132
LI PG+SVLIE T GNTGIGLAF+AA +GYKLII MP+ S+ERRI+L A GAE+ L D
Sbjct: 62 LIKPGESVLIEPTSGNTGIGLAFMAAAKGYKLIITMPASMSLERRIILLAFGAELVLTDP 121
Query: 133 AGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIG 192
A G +G ++K EEIL+ TPN ++ +QFENPANPKIHYETTGPEIWK +GG VD V+GIG
Sbjct: 122 AKGMKGAVQKAEEILAKTPNSYILQQFENPANPKIHYETTGPEIWKGTGGKVDAFVSGIG 181
Query: 193 TGGTVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPG 230
TGGT+TG+G++LKE+NP+IK+YGVEP ESA+L+GG+PG
Sbjct: 182 TGGTITGAGKYLKEQNPDIKLYGVEPVESAVLSGGKPG 219
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 323 bits (830), Expect = e-111
Identities = 133/215 (61%), Positives = 170/215 (79%)
Query: 16 IKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLIT 75
IK DA+QLIG TP+VYLN V +GC A IAAK EM +P S+KDR AL+MI+DAE+K LIT
Sbjct: 49 IKTDASQLIGKTPLVYLNKVTEGCGAYIAAKQEMFQPTSSIKDRPALAMIEDAEKKNLIT 108
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGG 135
PGK+ LIE T GN GI LAF+AA++GYK+I+ MPS S+ERR+ +RA GAE+ L D G
Sbjct: 109 PGKTTLIEPTSGNMGISLAFMAAMKGYKMILTMPSYTSLERRVTMRAFGAELVLTDPTKG 168
Query: 136 FEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGG 195
G ++K E+L +TP+ FM +QF NPAN ++H+ETTGPEIW+D+ G VDI V GIG+GG
Sbjct: 169 MGGTVKKAYELLESTPDAFMLQQFSNPANTQVHFETTGPEIWEDTLGQVDIFVMGIGSGG 228
Query: 196 TVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPG 230
TV+G G++LK KNPN+K+YGVEP ES +LNGG+PG
Sbjct: 229 TVSGVGKYLKSKNPNVKIYGVEPAESNVLNGGKPG 263
>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 = 318 bits (817), Expect = e-110
Identities = 123/210 (58%), Positives = 155/210 (73%), Gaps = 1/210 (0%)
Query: 21 TQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSV 80
+LIGNTP+V LN + GC AR+ AKLE P SVKDRIALSMI+DAE++GL+ PG
Sbjct: 2 EELIGNTPLVRLNRLAPGCDARVLAKLEGRNPSGSVKDRIALSMIEDAEKRGLLKPGD-T 60
Query: 81 LIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGIL 140
+IE T GNTGI LA +AA +GYKLI+ MP S+ERR +LRA GAE+ L G +G +
Sbjct: 61 IIEATSGNTGIALAMVAAAKGYKLILTMPETMSLERRKLLRAYGAELILTPAEEGMKGAI 120
Query: 141 RKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGS 200
K EE+ + T M QFENPANP+ HY+TTGPEIW+D+ G +D VAG+GTGGT+TG
Sbjct: 121 DKAEELAAETNKYVMLDQFENPANPEAHYKTTGPEIWRDTDGRIDHFVAGVGTGGTITGV 180
Query: 201 GRFLKEKNPNIKVYGVEPTESAMLNGGQPG 230
GR+LKE+NPNIK+ VEP ES +L+GG+PG
Sbjct: 181 GRYLKEQNPNIKIVAVEPAESPVLSGGEPG 210
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 320 bits (820), Expect = e-109
Identities = 148/215 (68%), Positives = 177/215 (82%)
Query: 16 IKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLIT 75
I + +QLIG TPMVYLN++ GCVA IAAKLE+MEPCCSVKDRI SM+ DAE+KG I+
Sbjct: 113 IADNVSQLIGKTPMVYLNSIAKGCVANIAAKLEIMEPCCSVKDRIGYSMVTDAEQKGFIS 172
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGG 135
PGKSVL+E T GNTGIGLAFIAA RGY+LI+ MP+ SMERR++L+A GAE+ L D A G
Sbjct: 173 PGKSVLVEPTSGNTGIGLAFIAASRGYRLILTMPASMSMERRVLLKAFGAELVLTDPAKG 232
Query: 136 FEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGG 195
G ++K EEIL NTP+ +M +QF+NPANPKIHYETTGPEIW D+ G VDI VAGIGTGG
Sbjct: 233 MTGAVQKAEEILKNTPDAYMLQQFDNPANPKIHYETTGPEIWDDTKGKVDIFVAGIGTGG 292
Query: 196 TVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPG 230
T+TG GRF+KEKNP +V GVEPTES +L+GG+PG
Sbjct: 293 TITGVGRFIKEKNPKTQVIGVEPTESDILSGGKPG 327
>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 = 308 bits (791), Expect = e-106
Identities = 119/208 (57%), Positives = 148/208 (71%), Gaps = 3/208 (1%)
Query: 25 GNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIET 84
GNTP+V LN + G A I AKLE P SVKDRIAL MI+DAE++GL+ PG + +IE
Sbjct: 1 GNTPLVRLNRLSPGTGAEIYAKLEFFNPGGSVKDRIALYMIEDAEKRGLLKPG-TTIIEP 59
Query: 85 TGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYL--ADQAGGFEGILRK 142
T GNTGIGLA +AA +GY+ IIVMP S E+R +LRALGAEV L +A G +G + K
Sbjct: 60 TSGNTGIGLAMVAAAKGYRFIIVMPETMSEEKRKLLRALGAEVILTPEAEADGMKGAIAK 119
Query: 143 GEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGR 202
E+ + TPN F QFENPANP+ HYETT PEIW+ G VD VAG+GTGGT+TG R
Sbjct: 120 ARELAAETPNAFWLNQFENPANPEAHYETTAPEIWEQLDGKVDAFVAGVGTGGTITGVAR 179
Query: 203 FLKEKNPNIKVYGVEPTESAMLNGGQPG 230
+LKEKNPN+++ GV+P S + +GG PG
Sbjct: 180 YLKEKNPNVRIVGVDPVGSVLFSGGPPG 207
>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 = 303 bits (778), Expect = e-104
Identities = 123/211 (58%), Positives = 158/211 (74%), Gaps = 3/211 (1%)
Query: 21 TQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSV 80
++LIGNTP+V LN + +GC A + KLE P SVKDRIAL+MI DAE++GL+ PGK
Sbjct: 2 SELIGNTPLVRLNRI-EGCNANVFVKLEGRNPSGSVKDRIALNMIWDAEKRGLLKPGK-T 59
Query: 81 LIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGIL 140
++E T GNTGI LA +AA RGYKLI+ MP S+ERR +L+A GAE+ L A G +G +
Sbjct: 60 IVEPTSGNTGIALAMVAAARGYKLILTMPETMSIERRKLLKAYGAELVLTPGAEGMKGAI 119
Query: 141 RKGEEILSNTPNG-FMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTG 199
K EEI ++TPN FM +QFENPANP+IH +TTGPEIW+D+ G +D VAG+GTGGT+TG
Sbjct: 120 AKAEEIAASTPNSYFMLQQFENPANPEIHRKTTGPEIWRDTDGKLDAFVAGVGTGGTITG 179
Query: 200 SGRFLKEKNPNIKVYGVEPTESAMLNGGQPG 230
G LKE+ PNIK+ VEP ES +L+GG+PG
Sbjct: 180 VGEVLKEQKPNIKIVAVEPAESPVLSGGKPG 210
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 296 bits (761), Expect = e-101
Identities = 115/220 (52%), Positives = 149/220 (67%), Gaps = 3/220 (1%)
Query: 16 IKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLIT 75
I + LIGNTP+V LN + G I AKLE P SVKDRIAL MI+DAE++GL+
Sbjct: 1 IYESILDLIGNTPLVRLNRLSPGTGVEIYAKLESFNPGGSVKDRIALYMIEDAEKRGLLK 60
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGG 135
PG ++E T GNTGI LA +AA +GY+LIIVMP S ERR +LRALGAEV L A G
Sbjct: 61 PGG-TIVEATSGNTGIALAMVAAAKGYRLIIVMPETMSQERRKLLRALGAEVILTPGAPG 119
Query: 136 F-EGILRKGEEILSNTPN-GFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGT 193
+G + + +E+ + P QFENPANP+ HYETTGPEIW+ + G VD VAG+GT
Sbjct: 120 NMKGAIERAKELAAEIPGYAVWLNQFENPANPEAHYETTGPEIWQQTDGKVDAFVAGVGT 179
Query: 194 GGTVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPGRLL 233
GGT+TG R+LKE+NPN+++ V+P S +L+GG+ +
Sbjct: 180 GGTITGVARYLKERNPNVRIVAVDPEGSVLLSGGEGPHKI 219
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 247 bits (632), Expect = 2e-81
Identities = 105/219 (47%), Positives = 145/219 (66%), Gaps = 12/219 (5%)
Query: 16 IKKDATQLIGNTPMVYLNNVVD--GCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGL 73
I +D + IGNTP++ LN + GC I K E + P SVKDR AL++I DAE++GL
Sbjct: 3 IFEDVSDTIGNTPLIRLNRASEATGC--EILGKAEFLNPGGSVKDRAALNIIWDAEKRGL 60
Query: 74 ITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYL---- 129
+ PG ++ +E T GNTGIGLA +AA RGYK +IVMP S E++ +LRALGAE+ L
Sbjct: 61 LKPGGTI-VEGTAGNTGIGLALVAAARGYKTVIVMPETQSQEKKDLLRALGAELVLVPAA 119
Query: 130 --ADQAGGFEGILRKGEEILSNTPNGFMF-RQFENPANPKIHYETTGPEIWKDSGGDVDI 186
A+ +G R EE++++ PNG ++ QF+NPAN + HYETTGPEIW+ + G VD
Sbjct: 120 PYANPNNYVKGAGRLAEELVASEPNGAIWANQFDNPANREAHYETTGPEIWEQTDGKVDG 179
Query: 187 LVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESAMLN 225
V +GTGGT+ G R+LKE NP +K+ +PT SA+ +
Sbjct: 180 FVCAVGTGGTLAGVSRYLKETNPKVKIVLADPTGSALYS 218
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 235 bits (603), Expect = 2e-77
Identities = 94/201 (46%), Positives = 123/201 (61%), Gaps = 2/201 (0%)
Query: 22 QLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVL 81
IGNTP+V L + I AKLE P SVKDR ALSMI AE++G I PG L
Sbjct: 8 DTIGNTPLVKLQRLPPDRGNTILAKLEGNNPAGSVKDRPALSMIVQAEKRGEIKPG-DTL 66
Query: 82 IETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILR 141
IE T GNTGI LA IAA++GY++ ++MP S ERR +RA GAE+ L + G EG R
Sbjct: 67 IEATSGNTGIALAMIAAIKGYRMKLIMPENMSQERRAAMRAYGAELILVPKEQGMEGA-R 125
Query: 142 KGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSG 201
+ G + QF NP NP HYETTGPEIW+ + G + V+ +GT GT+ G
Sbjct: 126 DLALQMQAEGEGKVLDQFANPDNPLAHYETTGPEIWRQTEGRITHFVSSMGTTGTIMGVS 185
Query: 202 RFLKEKNPNIKVYGVEPTESA 222
R+LKE+NP +++ G++P E +
Sbjct: 186 RYLKEQNPAVQIVGLQPEEGS 206
>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 = 221 bits (566), Expect = 4e-70
Identities = 99/219 (45%), Positives = 134/219 (61%), Gaps = 11/219 (5%)
Query: 16 IKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLIT 75
I+ + LIGNTP+V LN V G + AK E P SVKDRIAL MI+DAE G +
Sbjct: 1 IRDNIIDLIGNTPLVRLNKVSKGIKCELLAKCEFFNPGGSVKDRIALRMIEDAEASGRLK 60
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGG 135
PG +IE T GNTGIGLA +AA++GYK IIV+P S E+ VL+ALGAE+ A
Sbjct: 61 PG-DTIIEPTSGNTGIGLALVAAIKGYKCIIVLPEKMSNEKVDVLKALGAEIVRTPTAAA 119
Query: 136 FE------GILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVA 189
F+ G+ ++ ++ P + Q+ NP+NP HY+ TGPEI + G +D+ VA
Sbjct: 120 FDSPESHIGVAKR---LVREIPGAHILDQYNNPSNPLAHYDGTGPEILEQCEGKLDMFVA 176
Query: 190 GIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQ 228
G GTGGT+TG R+LKE NP ++ G +P E ++L +
Sbjct: 177 GAGTGGTITGIARYLKESNPKCRIVGADP-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 = 207 bits (529), Expect = 1e-66
Identities = 94/205 (45%), Positives = 129/205 (62%), Gaps = 2/205 (0%)
Query: 22 QLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVL 81
Q +GNTP+V L + + + KLE P SVKDR ALSMI +AE++G I PG VL
Sbjct: 4 QTVGNTPLVRLQRMGPENGSEVWLKLEGNNPAGSVKDRPALSMIVEAEKRGEIKPGD-VL 62
Query: 82 IETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILR 141
IE T GNTGI LA IAAL+GY++ ++MP S ER+ +RA GAE+ L + G EG
Sbjct: 63 IEATSGNTGIALAMIAALKGYRMKLLMPDNMSQERKAAMRAYGAELILVTKEEGMEGARD 122
Query: 142 KGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSG 201
E+ + G + QF NP NP HY +TGPEIW+ +GG + V+ +GT GT+ G
Sbjct: 123 LALELANRGE-GKLLDQFNNPDNPYAHYTSTGPEIWQQTGGRITHFVSSMGTTGTIMGVS 181
Query: 202 RFLKEKNPNIKVYGVEPTESAMLNG 226
RFLKE+NP +++ G++P E + + G
Sbjct: 182 RFLKEQNPPVQIVGLQPEEGSSIPG 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 (513), Expect = 1e-64
Identities = 87/194 (44%), Positives = 109/194 (56%), Gaps = 6/194 (3%)
Query: 27 TPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTG 86
TP+V L + A I KLE + P S KDR AL++I AEE+G + K V+IE+TG
Sbjct: 1 TPLVRLKRLSKLGGANIYLKLEFLNPTGSFKDRGALNLILLAEEEGKL--PKGVIIESTG 58
Query: 87 GNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILRKGEEI 146
GNTGI LA AA G K IVMP AS E+ +RALGAEV L G F+ + +E+
Sbjct: 59 GNTGIALAAAAARLGLKCTIVMPEGASPEKVAQMRALGAEVVLVP--GDFDDAIALAKEL 116
Query: 147 LSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGG-DVDILVAGIGTGGTVTGSGRFLK 205
P + QF+NPAN T G EI + GG D +V +G GG + G R LK
Sbjct: 117 AEEDPGAYYVNQFDNPANIAGQG-TIGLEILEQLGGQKPDAVVVPVGGGGNIAGIARALK 175
Query: 206 EKNPNIKVYGVEPT 219
E PN+KV GVEP
Sbjct: 176 ELLPNVKVIGVEPE 189
>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 = 191 bits (487), Expect = 5e-60
Identities = 86/215 (40%), Positives = 125/215 (58%), Gaps = 9/215 (4%)
Query: 22 QLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVL 81
LIGNTP+V L + R+ AKLE P S+KDR AL +++ A ++G ITPG + +
Sbjct: 3 SLIGNTPLVKLERLFPDAPFRLFAKLEGFNPGGSIKDRPALYILEAAIKRGRITPG-TTI 61
Query: 82 IETTGGNTGIGLAFIAALRGYKLIIVM-PSIASMERRIVLRALGAEVYLADQ---AGGFE 137
IE++ GN GI LA I A +G + I V+ P+I+ ++ LRA GAEV + GG+
Sbjct: 62 IESSSGNLGIALAMICAYKGLRFICVVDPNISPQNLKL-LRAYGAEVEKVTEPDETGGYL 120
Query: 138 GI-LRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGT 196
G + + E+L++ P+ + Q+ NP NP+ HY TG EI + +D L G+ T GT
Sbjct: 121 GTRIARVRELLASIPDAYWPNQYANPDNPRAHYHGTGREI-ARAFPPLDYLFVGVSTTGT 179
Query: 197 VTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPGR 231
+ G R L+E+ PN KV V+ S + GG PGR
Sbjct: 180 LMGCSRRLRERGPNTKVIAVDAVGSVIF-GGPPGR 213
>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 = 171 bits (436), Expect = 2e-52
Identities = 77/208 (37%), Positives = 108/208 (51%), Gaps = 13/208 (6%)
Query: 21 TQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSV 80
+ IG TP+V L + AR+ KLE + P S KDR A ++ A E+G +
Sbjct: 2 SLGIGPTPLVRLPS--PLLGARVYLKLESLNPTGSFKDRGAAYLLLRALERG------AT 53
Query: 81 LIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEG-- 138
++E + GNTG LA AA G K+ IV+P AS + +++RALGAEV L G ++
Sbjct: 54 VVEASSGNTGRALAAAAARLGLKVTIVVPEGASPGKLLLMRALGAEVILVVSEGDYDDAL 113
Query: 139 -ILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSG-GDVDILVAGIGTGGT 196
+ + E+L+ Q+ NP N Y+T G EI + G GD D +V +G GG
Sbjct: 114 ELAEEAAELLAAYDGPIPLGQYNNP-NVIAGYKTIGLEILEQLGQGDPDAVVVPVGGGGL 172
Query: 197 VTGSGRFLKEKNPNIKVYGVEPTESAML 224
G R LKE P I+V GVEP + L
Sbjct: 173 AAGIARGLKELGPGIRVIGVEPEGAPAL 200
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 154 bits (390), Expect = 2e-44
Identities = 89/243 (36%), Positives = 126/243 (51%), Gaps = 42/243 (17%)
Query: 24 IGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIE 83
IGNTP++ +N++ + I K E + P SVKDR+A+ +I++A E G + PG V+ E
Sbjct: 51 IGNTPLIRINSLSEATGCEILGKCEFLNPGGSVKDRVAVKIIEEALESGQLFPG-GVVTE 109
Query: 84 TTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEV-------------YL- 129
+ G+T I LA +A G K +V+P ++E+ +L ALGA V Y+
Sbjct: 110 GSAGSTAISLATVAPAYGCKCHVVIPDDVAIEKSQILEALGATVERVRPVSITHKDHYVN 169
Query: 130 -----ADQAGGFEGILRKGEEI----------------------LSNTPNGFMFRQFENP 162
A +A RKG E S+ GF QFEN
Sbjct: 170 IARRRALEANELASKRRKGSETDGIHLEKTNGCISEEEKENSLFSSSCTGGFFADQFENL 229
Query: 163 ANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESA 222
AN + HYE TGPEIW+ + G++D VA GTGGT+ G RFL+EKNPNIK + ++P S
Sbjct: 230 ANFRAHYEGTGPEIWEQTQGNLDAFVAAAGTGGTLAGVSRFLQEKNPNIKCFLIDPPGSG 289
Query: 223 MLN 225
+ N
Sbjct: 290 LFN 292
>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 = 82.5 bits (205), Expect = 1e-18
Identities = 57/213 (26%), Positives = 87/213 (40%), Gaps = 43/213 (20%)
Query: 27 TPMVY---LNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMI----KDAEEKGLITPGKS 79
TP++ L+ ++ A + K E ++ S K R A + + ++ KG++
Sbjct: 18 TPLLTSPTLSELLG---AEVYLKCENLQKTGSFKIRGAYNKLLSLSEEERAKGVVA---- 70
Query: 80 VLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGI 139
+ GN G+A+ A L G IVMP A + RA GAEV L F+
Sbjct: 71 ----ASAGNHAQGVAYAAKLLGIPATIVMPETAPAAKVDATRAYGAEVVLYG--EDFDEA 124
Query: 140 LRKGEEILSNTPNGFMFRQFENPANPKIH-YE---------TTGPEIWKDSGGDVDILVA 189
K E+ G F IH ++ T G EI + D+D +
Sbjct: 125 EAKARELAEEE--GLTF----------IHPFDDPDVIAGQGTIGLEILEQV-PDLDAVFV 171
Query: 190 GIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESA 222
+G GG + G +K +PN KV GVEP +
Sbjct: 172 PVGGGGLIAGIATAVKALSPNTKVIGVEPEGAP 204
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 82.3 bits (204), Expect = 3e-18
Identities = 56/201 (27%), Positives = 81/201 (40%), Gaps = 17/201 (8%)
Query: 27 TPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTG 86
TP+ ++ + A I K E ++P S K R A + + E+ G +I +
Sbjct: 26 TPLQRSPSLSERLGAEIYLKRENLQPVGSFKIRGAYNKLSSLSEEEERAAG---VIAASA 82
Query: 87 GNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILRKGEEI 146
GN G+A+ A G K IVMP + R GAEV L F+ EE+
Sbjct: 83 GNHAQGVAYAAKRLGIKATIVMPETTPKIKVDATRGYGAEVILHGDN--FDDAYAAAEEL 140
Query: 147 LSNTPNGFMFRQ-FENPANPKIH----YETTGPEIWKDSGGDVDILVAGIGTGGTVTGSG 201
G F F++P T EI + D + +G GG ++G
Sbjct: 141 AEE--EGLTFVPPFDDP-----DVIAGQGTIALEILEQLPDLPDAVFVPVGGGGLISGIA 193
Query: 202 RFLKEKNPNIKVYGVEPTESA 222
LK +P IKV GVEP +
Sbjct: 194 TALKALSPEIKVIGVEPEGAP 214
>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 = 70.5 bits (173), Expect = 5e-14
Identities = 62/213 (29%), Positives = 95/213 (44%), Gaps = 25/213 (11%)
Query: 27 TPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTG 86
TP++Y + D + + KLE ++ S K R AL+ I + E + ++ +
Sbjct: 1 TPLIYSTTLSDITGSEVYLKLENLQKTGSFKIRGALNKIANLSEDQ----RQRGVVAASA 56
Query: 87 GNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYL--ADQAGGFEGILRKGE 144
GN G+A+ A G K +IVMP A + ++ GAEV L D + E
Sbjct: 57 GNHAQGVAYAAKKFGIKAVIVMPESAPPSKVKATKSYGAEVILHGDDYDEAYAFATSLAE 116
Query: 145 EILSNTPNGFMF-RQFENP---ANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGS 200
E G +F F++ A T G EI +D DVD ++ +G GG ++G
Sbjct: 117 E------EGRVFVHPFDDEFVMAGQG----TIGLEIMED-IPDVDTVIVPVGGGGLISGV 165
Query: 201 GRFLKEKNPNIKVYGVE----PTESAMLNGGQP 229
K+ NPN+KV GVE P+ L G+
Sbjct: 166 ASAAKQINPNVKVIGVEAEGAPSMYESLREGKI 198
>gnl|CDD|236317 PRK08638, PRK08638, threonine dehydratase; Validated.
Length = 333
Score = 62.4 bits (152), Expect = 2e-11
Identities = 66/198 (33%), Positives = 87/198 (43%), Gaps = 23/198 (11%)
Query: 27 TPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIA---LSMIKDAE-EKGLITPGKSVLI 82
TP+ N + + C I KLE M+ S K R A LS + DAE KG++
Sbjct: 28 TPLPRSNYLSERCKGEIFLKLENMQRTGSFKIRGAFNKLSSLTDAEKRKGVVA------- 80
Query: 83 ETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILRK 142
+ GN G+A AL G +VMP A + GAEV L F + K
Sbjct: 81 -CSAGNHAQGVALSCALLGIDGKVVMPKGAPKSKVAATCGYGAEVVLHGDN--FNDTIAK 137
Query: 143 GEEILSNTPNGFMFRQFENPAN-PKI--HYETTGPEIWKDSGGDVDILVAGIGTGGTVTG 199
EEI+ R F P + PK+ T G EI +D DVD ++ IG GG + G
Sbjct: 138 VEEIVEEEG-----RTFIPPYDDPKVIAGQGTIGLEILEDLW-DVDTVIVPIGGGGLIAG 191
Query: 200 SGRFLKEKNPNIKVYGVE 217
LK NP I + GV+
Sbjct: 192 IAVALKSINPTIHIIGVQ 209
>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 = 62.4 bits (152), Expect = 3e-11
Identities = 60/207 (28%), Positives = 85/207 (41%), Gaps = 36/207 (17%)
Query: 42 RIAAKLEMMEPCCSVKDRIALSMI----KDAEEKGLITPGKSVLIETTGGNTGIGLAFIA 97
RI K E ++P S K R A + + + + +G+I + GN G+AF A
Sbjct: 33 RILIKREDLQPVFSFKLRGAYNKMAQLSPEQKARGVIA--------ASAGNHAQGVAFSA 84
Query: 98 ALRGYKLIIVMPSIASMERRIVLRALGAEVYLA----DQAGGFEGILRKGEEILSNTPNG 153
A G K +IVMP + +R G EV L D A L + G
Sbjct: 85 ARLGLKALIVMPETTPDIKVDAVRGFGGEVVLHGANFDDAKAKAIELSQ--------EKG 136
Query: 154 FMF-RQFENP---ANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNP 209
F F++P A T EI + +D + +G GG G +K+ P
Sbjct: 137 LTFIHPFDDPLVIAGQG----TLALEILRQVANPLDAVFVPVGGGGLAAGVAALIKQLMP 192
Query: 210 NIKVYGVEPTES----AMLNGGQPGRL 232
IKV GVEPT+S L+ G+P L
Sbjct: 193 EIKVIGVEPTDSDCMKQALDAGEPVDL 219
>gnl|CDD|236182 PRK08198, PRK08198, threonine dehydratase; Provisional.
Length = 404
Score = 61.3 bits (150), Expect = 7e-11
Identities = 51/178 (28%), Positives = 80/178 (44%), Gaps = 42/178 (23%)
Query: 59 RIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRI 118
+IA S+ ++ +G++ + GN G+A+ A+L G K IVMP A + +
Sbjct: 60 KIA-SLSEEERARGVVA--------ASAGNHAQGVAYAASLLGIKATIVMPETAPLSKVK 110
Query: 119 VLRALGAEVYLA----DQAGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIH-YE--- 170
R+ GAEV L D+A L K +E+ T G F +H ++
Sbjct: 111 ATRSYGAEVVLHGDVYDEA------LAKAQELAEET--GATF----------VHPFDDPD 152
Query: 171 ------TTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESA 222
T G EI +D DVD +V IG GG ++G +K P ++V GV+ +
Sbjct: 153 VIAGQGTIGLEILED-LPDVDTVVVPIGGGGLISGVATAVKALRPEVRVIGVQAEGAP 209
>gnl|CDD|237111 PRK12483, PRK12483, threonine dehydratase; Reviewed.
Length = 521
Score = 57.9 bits (140), Expect = 9e-10
Identities = 54/188 (28%), Positives = 83/188 (44%), Gaps = 18/188 (9%)
Query: 42 RIAAKLEMMEPCCSVKDRIALSMIK----DAEEKGLITPGKSVLIETTGGNTGIGLAFIA 97
++ K E ++P S K R A + + + +G+IT + GN G+A A
Sbjct: 53 QVLLKREDLQPVFSFKIRGAYNKMARLPAEQLARGVIT--------ASAGNHAQGVALAA 104
Query: 98 ALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILRKGEEILSNTPNGFMF- 156
A G K +IVMP + +RA G EV L ++ F L ++ G F
Sbjct: 105 ARLGVKAVIVMPRTTPQLKVDGVRAHGGEVVLHGES--FPDALAHALKLAEE--EGLTFV 160
Query: 157 RQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGV 216
F++P + T EI + G +D + +G GG + G ++K P IKV GV
Sbjct: 161 PPFDDP-DVIAGQGTVAMEILRQHPGPLDAIFVPVGGGGLIAGIAAYVKYVRPEIKVIGV 219
Query: 217 EPTESAML 224
EP +S L
Sbjct: 220 EPDDSNCL 227
>gnl|CDD|180709 PRK06815, PRK06815, hypothetical protein; Provisional.
Length = 317
Score = 53.2 bits (128), Expect = 2e-08
Identities = 50/192 (26%), Positives = 80/192 (41%), Gaps = 25/192 (13%)
Query: 41 ARIAAKLEMMEPCCSVKDRIALSMIK----DAEEKGLITPGKSVLIETTGGNTGIGLAFI 96
+ K E ++ S K R A + ++ ++G+IT + GN G G+A
Sbjct: 35 CEVYLKCEHLQHTGSFKFRGASNKLRLLNEAQRQQGVIT--------ASSGNHGQGVALA 86
Query: 97 AALRGYKLIIVMPSIASMERRIVLRALGAEV-YLADQAGGFEGILRKGEEILSNTPNGFM 155
A L G + + P AS + +RALGAEV A E R+ E
Sbjct: 87 AKLAGIPVTVYAPEQASAIKLDAIRALGAEVRLYGGDALNAELAARRAAEQQGKV----- 141
Query: 156 FRQFENPAN-PKI--HYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIK 212
+ +P N P++ T G E+ + + VA +G GG ++G +LK +P +
Sbjct: 142 ---YISPYNDPQVIAGQGTIGMELVEQQPDLDAVFVA-VGGGGLISGIATYLKTLSPKTE 197
Query: 213 VYGVEPTESAML 224
+ G P S L
Sbjct: 198 IIGCWPANSPSL 209
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 52.8 bits (128), Expect = 4e-08
Identities = 58/204 (28%), Positives = 86/204 (42%), Gaps = 50/204 (24%)
Query: 42 RIAAKLEMMEPCCSVKDRIALSMI----KDAEEKGLITPGKSVLIETTGGNTGIGLAFIA 97
++ K E ++P S K R A + + ++ +G+IT + GN G+A A
Sbjct: 36 QVLLKREDLQPVFSFKLRGAYNKMAQLTEEQLARGVIT--------ASAGNHAQGVALSA 87
Query: 98 ALRGYKLIIVMPSI-ASMERRIVLRALGAEVYLA----DQAGGFEGILRKGEEI-LSNTP 151
A G K +IVMP ++ V RA G EV L D+A I L+
Sbjct: 88 ARLGIKAVIVMPVTTPDIKVDAV-RAFGGEVVLHGDSFDEA--------YAHAIELAEE- 137
Query: 152 NGFMFRQFENPANPKIH-YE---------TTGPEIWKDSGGDVD-ILVAGIGTGGTVTGS 200
G F IH ++ T EI + +D + V +G GG + G
Sbjct: 138 EGLTF----------IHPFDDPDVIAGQGTIAMEILQQHPHPLDAVFVP-VGGGGLIAGV 186
Query: 201 GRFLKEKNPNIKVYGVEPTESAML 224
++K+ P IKV GVEP +SA L
Sbjct: 187 AAYIKQLRPEIKVIGVEPEDSACL 210
>gnl|CDD|178165 PLN02550, PLN02550, threonine dehydratase.
Length = 591
Score = 52.6 bits (126), Expect = 5e-08
Identities = 52/191 (27%), Positives = 85/191 (44%), Gaps = 25/191 (13%)
Query: 42 RIAAKLEMMEPCCSVKDRIALSMI----KDAEEKGLITPGKSVLIETTGGNTGIGLAFIA 97
++ K E ++P S K R A +M+ K+ +KG+I ++ GN G+A A
Sbjct: 125 KVLLKREDLQPVFSFKLRGAYNMMAKLPKEQLDKGVIC--------SSAGNHAQGVALSA 176
Query: 98 ALRGYKLIIVMPSIASMERRIVLRALGAEVYLA----DQAGGFEGILRKGEEILSNTPNG 153
G +I MP + + LGA V L D+A + R EE + P
Sbjct: 177 QRLGCDAVIAMPVTTPEIKWQSVERLGATVVLVGDSYDEAQAYAKQ-RALEEGRTFIP-- 233
Query: 154 FMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKV 213
F++P + T G EI + G + + +G GG + G ++K P +K+
Sbjct: 234 ----PFDHP-DVIAGQGTVGMEIVRQHQGPLHAIFVPVGGGGLIAGIAAYVKRVRPEVKI 288
Query: 214 YGVEPTES-AM 223
GVEP+++ AM
Sbjct: 289 IGVEPSDANAM 299
>gnl|CDD|180550 PRK06382, PRK06382, threonine dehydratase; Provisional.
Length = 406
Score = 52.2 bits (125), Expect = 6e-08
Identities = 57/219 (26%), Positives = 94/219 (42%), Gaps = 26/219 (11%)
Query: 24 IGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIAL---SMIKDAEEK-GLITPGKS 79
+ TP+++ D I KLE + S K R A+ S + + E + G+IT
Sbjct: 23 LNRTPLIHSTTFGDEYGGDIYFKLENFQKTGSFKSRGAVFKFSKLSEDELRNGVIT---- 78
Query: 80 VLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLA----DQAGG 135
+ GN G+A+ A++ G IVMP ++ + A GA V L D+A
Sbjct: 79 ----ASAGNHAQGVAYAASINGIDAKIVMPEYTIPQKVNAVEAYGAHVILTGRDYDEAHR 134
Query: 136 FEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGG 195
+ + E F + N T G EI +D D+D ++ +G GG
Sbjct: 135 YADKIAMDE--------NRTFIEAFNDRWVISGQGTIGLEIMEDLP-DLDQIIVPVGGGG 185
Query: 196 TVTGSGRFLKEKNPNIKVYGVEPTES-AMLNGGQPGRLL 233
++G K NPN+K+ G+E S +M + G+++
Sbjct: 186 LISGIALAAKHINPNVKIIGIESELSDSMKASLREGKIV 224
>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 = 50.7 bits (122), Expect = 2e-07
Identities = 53/185 (28%), Positives = 82/185 (44%), Gaps = 14/185 (7%)
Query: 25 GNTPMVYLNNVVD-GCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIE 83
GNTP+V + + + K E + P S KDR + A+E G+ K+V
Sbjct: 21 GNTPLVRAPRLGERLGGKNLYVKDEGLNPTGSFKDRGMTVAVSKAKELGV----KAVACA 76
Query: 84 TTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEGILRKG 143
+TG NT LA AA G K ++ +P+ ++ + A GA V + G F+ LR
Sbjct: 77 STG-NTSASLAAYAARAGIKCVVFLPAGKALGKLAQALAYGATVLAVE--GNFDDALRLV 133
Query: 144 EEILSNTPNGFMFRQFENPANPKIH-YETTGPEIWKDSGGDV-DILVAGIGTGGTVTGSG 201
E+ N NP ++ +T EI + G +V D +V +G GG +T
Sbjct: 134 RELAEE--NWIYLSNSLNPY--RLEGQKTIAFEIAEQLGWEVPDYVVVPVGNGGNITAIW 189
Query: 202 RFLKE 206
+ KE
Sbjct: 190 KGFKE 194
>gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed.
Length = 352
Score = 50.8 bits (121), Expect = 2e-07
Identities = 59/218 (27%), Positives = 95/218 (43%), Gaps = 20/218 (9%)
Query: 19 DATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGK 78
D + + GNTP++ L N+ ++ K E P S KDR + + A+E+G +
Sbjct: 21 DVSLMEGNTPLIPLLNISKQLGIQLYGKYEGANPTGSFKDRGMVMAVAKAKEEG----SE 76
Query: 79 SVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLR-ALGAEVYLADQAGGFE 137
+++ +T GNT A AA G K IIV+P ++ A GAE+ + G F+
Sbjct: 77 AIICAST-GNTSASAAAYAARLGMKCIIVIPEGKIAHGKLAQAVAYGAEIISIE--GNFD 133
Query: 138 GILRKGEEILSNTPNGFMFRQFENPANP-KIHYETTGP-EIWKDSGGDVDILVAGIGTGG 195
L+ I + P + N NP +I + T EI D+L +G G
Sbjct: 134 DALKAVRNIAAEEPITLV-----NSVNPYRIEGQKTAAFEICDQLQRAPDVLAIPVGNAG 188
Query: 196 TVT----GSGRFLKEKN-PNIKVYGVEPTESAMLNGGQ 228
+T G + KEK +++G E +A + G
Sbjct: 189 NITAYWKGFCEYEKEKGYKKPRIHGFEAEGAAAIVKGH 226
>gnl|CDD|181319 PRK08246, PRK08246, threonine dehydratase; Provisional.
Length = 310
Score = 50.3 bits (121), Expect = 2e-07
Identities = 50/201 (24%), Positives = 79/201 (39%), Gaps = 44/201 (21%)
Query: 46 KLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLI 105
KLE ++ S K R A + + A P V+ +GGN G+ +A+ AA G
Sbjct: 42 KLEHLQHTGSFKARGAFNRLLAAPV-----PAAGVVA-ASGGNAGLAVAYAAAALGVPAT 95
Query: 106 IVMPSIASMERRIVLRALGAEVYL--ADQAGGFEGILRKGEEILSNTPNGFMFRQFENPA 163
+ +P A + LRALGAEV + A+ A E E G +
Sbjct: 96 VFVPETAPPAKVARLRALGAEVVVVGAEYADALEAAQAFAAE------TGALL------- 142
Query: 164 NPKIH-YETTGPEI----------WKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIK 212
H Y+ PE+ ++ VD ++ +G GG + G + + +
Sbjct: 143 ---CHAYDQ--PEVLAGAGTLGLEIEEQAPGVDTVLVAVGGGGLIAGIAAWFE---GRAR 194
Query: 213 VYGVEPTESAMLNG----GQP 229
V VEP + L+ G+P
Sbjct: 195 VVAVEPEGAPTLHAALAAGEP 215
>gnl|CDD|180539 PRK06352, PRK06352, threonine synthase; Validated.
Length = 351
Score = 48.9 bits (116), Expect = 8e-07
Identities = 58/216 (26%), Positives = 94/216 (43%), Gaps = 26/216 (12%)
Query: 25 GNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIET 84
GNTP++ L N+ + K E + P S KDR + + A+E+G ++V+ +
Sbjct: 27 GNTPLIPLPNLSKELGVTLYGKYEGLNPTGSFKDRGMVMAVAKAKEEG----AEAVICAS 82
Query: 85 TGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALG-AEVYLAD---QAGGFEGIL 140
T GNT A A G K IV+P E ++ L L A +Y AD G F+ L
Sbjct: 83 T-GNTSAAAAAYATRAGLKAYIVIP-----EGKVALGKLAQAVMYGADIISIQGNFDEAL 136
Query: 141 RKGEEILSNTPNGFMFRQFENPANP-KIHYETTGP-EIWKDSGGDVDILVAGIGTGGTVT 198
+ E+ + N NP ++ + T EI + G D+L +G G ++
Sbjct: 137 KSVRELAETEAVTLV-----NSVNPYRLEGQKTAAFEICEQLGSAPDVLAIPVGNAGNIS 191
Query: 199 GSGRFLKEKNPNI-----KVYGVEPTESAMLNGGQP 229
+ KE N +++G E +A + G+P
Sbjct: 192 AYWKGFKEWNEAKASGLPRMHGFEAEGAAAIVQGKP 227
>gnl|CDD|181457 PRK08526, PRK08526, threonine dehydratase; Provisional.
Length = 403
Score = 48.6 bits (116), Expect = 1e-06
Identities = 56/209 (26%), Positives = 90/209 (43%), Gaps = 41/209 (19%)
Query: 24 IGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVK-----DRIALSMIKDAEEKGLITPGK 78
+ TP Y + A + K E ++ + K ++IA ++ ++ ++ G+I
Sbjct: 18 VNKTPFAYAPFLSKISGAEVYLKKENLQITGAYKIRGAYNKIA-NLSEEQKQHGVIA--- 73
Query: 79 SVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLA----DQAG 134
+ GN G+A A G K +IVMP + + +ALGAEV L D+A
Sbjct: 74 -----ASAGNHAQGVAISAKKFGIKAVIVMPEATPLLKVSGTKALGAEVILKGDNYDEA- 127
Query: 135 GFEGILRKGEEILSNTPNGFMF-RQFENPANPKIHYE------TTGPEIWKDSGGDVDIL 187
+ L +E N F FE+ E T E+ D D+D++
Sbjct: 128 -YAFALEYAKE------NNLTFIHPFED-------EEVMAGQGTIALEML-DEISDLDMV 172
Query: 188 VAGIGTGGTVTGSGRFLKEKNPNIKVYGV 216
V +G GG ++G K+ NPNIK+ GV
Sbjct: 173 VVPVGGGGLISGIASAAKQINPNIKIIGV 201
>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 = 47.8 bits (114), Expect = 2e-06
Identities = 47/215 (21%), Positives = 82/215 (38%), Gaps = 25/215 (11%)
Query: 15 AIKKDATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLI 74
A +K +++ +TP+ + + A I K E ++P S K R A + +K + L
Sbjct: 5 AARKRLKEVVPHTPLQLNERLSEKYGANIYLKREDLQPVRSYKIRGAYNFLKQLSDAQL- 63
Query: 75 TPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAE-------- 126
++ + GN G A+ G + MP+ ++ ++ G E
Sbjct: 64 ---AKGVVCASAGNHAQGFAYACRHLGVHGTVFMPATTPKQKIDRVKIFGGEFIEIILVG 120
Query: 127 -VYLADQAGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIHYE-TTGPEIWKDSGGDV 184
+ A E + G G F++P I + T EI
Sbjct: 121 DTFDQCAAAAREHVEDHG---------GTFIPPFDDPR--IIEGQGTVAAEILDQLPEKP 169
Query: 185 DILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPT 219
D +V +G GG ++G +L +P K+ GVEP
Sbjct: 170 DYVVVPVGGGGLISGLTTYLAGTSPKTKIIGVEPE 204
>gnl|CDD|235994 PRK07334, PRK07334, threonine dehydratase; Provisional.
Length = 403
Score = 47.6 bits (114), Expect = 2e-06
Identities = 55/211 (26%), Positives = 84/211 (39%), Gaps = 45/211 (21%)
Query: 26 NTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIA---LSMIKDAE-EKGLITPGKSVL 81
TP V+ + A + K E ++ S K+R A L ++ + E +G+I
Sbjct: 23 RTPCVHSRTLSQITGAEVWLKFENLQFTASFKERGALNKLLLLTEEERARGVIA------ 76
Query: 82 IETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLA----DQAGGFE 137
+ GN G+A+ A G IVMP + R GAEV L D+A
Sbjct: 77 --MSAGNHAQGVAYHAQRLGIPATIVMPRFTPTVKVERTRGFGAEVVLHGETLDEARAHA 134
Query: 138 GILRKGEEILSNTPNGFMFRQFENPANPKIH-YE---------TTGPEIWKDSGGDVDIL 187
L + E G F +H Y+ T E+ +D+ D+D L
Sbjct: 135 RELAEEE--------GLTF----------VHPYDDPAVIAGQGTVALEMLEDAP-DLDTL 175
Query: 188 VAGIGTGGTVTGSGRFLKEKNPNIKVYGVEP 218
V IG GG ++G K P+I++ GV+
Sbjct: 176 VVPIGGGGLISGMATAAKALKPDIEIIGVQT 206
>gnl|CDD|235789 PRK06381, PRK06381, threonine synthase; Validated.
Length = 319
Score = 46.6 bits (111), Expect = 4e-06
Identities = 30/88 (34%), Positives = 41/88 (46%), Gaps = 9/88 (10%)
Query: 42 RIAAKLEMMEPCCSVKDRIALSMIKDAEEKGL--ITPGKSVLIETTGGNTGIGLAFIAAL 99
+I K E P + KDRIA + ++ A G IT G T GN G +A+ A L
Sbjct: 32 KIYLKFEGANPTGTQKDRIAEAHVRRAMRLGYSGITVG-------TCGNYGASIAYFARL 84
Query: 100 RGYKLIIVMPSIASMERRIVLRALGAEV 127
G K +I +P S R + GAE+
Sbjct: 85 YGLKAVIFIPRSYSNSRVKEMEKYGAEI 112
>gnl|CDD|235842 PRK06608, PRK06608, threonine dehydratase; Provisional.
Length = 338
Score = 45.9 bits (109), Expect = 7e-06
Identities = 48/200 (24%), Positives = 86/200 (43%), Gaps = 15/200 (7%)
Query: 22 QLIGNTPMVY---LNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGK 78
Q + TP+V+ LN ++ I K+E ++ + K R L+ + + +E+G + P K
Sbjct: 19 QYLHLTPIVHSESLNEMLG---HEIFFKVESLQKTGAFKVRGVLNHLLELKEQGKL-PDK 74
Query: 79 SVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGGFEG 138
++ + GN G +A+ + L G K I +P S ++ G EV L + E
Sbjct: 75 --IVAYSTGNHGQAVAYASKLFGIKTRIYLPLNTSKVKQQAALYYGGEVILTNTRQEAEE 132
Query: 139 ILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVT 198
++ EE GF + + + T E + G D + A G GG ++
Sbjct: 133 KAKEDEE------QGFYYIHPSDSDSTIAGAGTLCYEALQQLGFSPDAIFASCGGGGLIS 186
Query: 199 GSGRFLKEKNPNIKVYGVEP 218
G+ + +P + G EP
Sbjct: 187 GTYLAKELISPTSLLIGSEP 206
>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 = 44.1 bits (104), Expect = 3e-05
Identities = 48/207 (23%), Positives = 86/207 (41%), Gaps = 16/207 (7%)
Query: 15 AIKKDATQLIGN---TPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIK--DAE 69
I++ A ++ G TP+V ++ + C + KLE + S K R A + +
Sbjct: 5 DIERAAARISGRVEETPLVESPSLSELCGVPVHLKLEHRQTTGSFKLRGATNAVLSLSDT 64
Query: 70 EKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYL 129
++ ++ + GN G LA+ AA G + I M + + +R LGAEV +
Sbjct: 65 QRAA------GVVAASTGNHGRALAYAAAEEGVRATICMSELVPQNKVDEIRRLGAEVRI 118
Query: 130 ADQAGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILVA 189
G + ++ E L M F++P T G E+ + D+ ++
Sbjct: 119 ---VGRSQDDAQEEVERLVADRGLTMLPPFDHPDIVAGQ-GTLGLEVVEQM-PDLATVLV 173
Query: 190 GIGTGGTVTGSGRFLKEKNPNIKVYGV 216
+ GG +G +K P+ +V GV
Sbjct: 174 PLSGGGLASGVAMAVKAARPDTRVIGV 200
>gnl|CDD|235699 PRK06110, PRK06110, hypothetical protein; Provisional.
Length = 322
Score = 43.4 bits (103), Expect = 4e-05
Identities = 21/52 (40%), Positives = 28/52 (53%)
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEV 127
P +I T GN G +AF A G IV+P S+E+ +RALGAE+
Sbjct: 68 PRVRGVISATRGNHGQSVAFAARRHGLAATIVVPHGNSVEKNAAMRALGAEL 119
>gnl|CDD|236025 PRK07476, eutB, threonine dehydratase; Provisional.
Length = 322
Score = 43.0 bits (102), Expect = 6e-05
Identities = 61/216 (28%), Positives = 91/216 (42%), Gaps = 31/216 (14%)
Query: 27 TPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIA----LSMIKDAEEKGLITPGKSVLI 82
TP+V ++ + KLE ++P S K R A LS+ +G++T
Sbjct: 20 TPLVASASLSARAGVPVWLKLETLQPTGSFKLRGATNALLSLSAQERARGVVT------- 72
Query: 83 ETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLA----DQAGGFEG 138
+ GN G LA+ A G + I M + + +RALGAEV + D A E
Sbjct: 73 -ASTGNHGRALAYAARALGIRATICMSRLVPANKVDAIRALGAEVRIVGRSQDDAQ-AEV 130
Query: 139 ILRKGEEILSNTPNGFMFRQFENPANPKIHYE-TTGPEIWKDSGGDVDILVAGIGTGGTV 197
EE L+ P F++P I + T G EI + DV ++ + GG
Sbjct: 131 ERLVREEGLTMVP------PFDDPR--IIAGQGTIGLEILEALP-DVATVLVPLSGGGLA 181
Query: 198 TGSGRFLKEKNPNIKVYGVEPTE-SAM---LNGGQP 229
+G +K P I+V GV +AM L G+P
Sbjct: 182 SGVAAAVKAIRPAIRVIGVSMERGAAMHASLAAGRP 217
>gnl|CDD|236318 PRK08639, PRK08639, threonine dehydratase; Validated.
Length = 420
Score = 41.3 bits (98), Expect = 2e-04
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 171 TTGPEIWKDSG--GDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPT 219
T EI + G D + +G GG ++G +LKE++P K+ GVEP
Sbjct: 165 TVAVEILEQLEKEGSPDYVFVPVGGGGLISGVTTYLKERSPKTKIIGVEPA 215
>gnl|CDD|236244 PRK08329, PRK08329, threonine synthase; Validated.
Length = 347
Score = 40.6 bits (95), Expect = 4e-04
Identities = 25/86 (29%), Positives = 46/86 (53%), Gaps = 5/86 (5%)
Query: 46 KLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLI 105
KL+ ++P S KDR + +E+G+ V+I+++G N + LA + G K+
Sbjct: 77 KLDYLQPTGSFKDRGTYVTVAKLKEEGI----NEVVIDSSG-NAALSLALYSLSEGIKVH 131
Query: 106 IVMPSIASMERRIVLRALGAEVYLAD 131
+ + AS E+ +L LGAE++ +
Sbjct: 132 VFVSYNASKEKISLLSRLGAELHFVE 157
Score = 27.9 bits (62), Expect = 4.8
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 89 TGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAE 126
G G F+ +G+K + M I+ M + + ++A G E
Sbjct: 212 VGSGTLFLGIWKGFKELHEMGEISKMPKLVAVQAEGYE 249
>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 = 40.5 bits (95), Expect = 5e-04
Identities = 20/55 (36%), Positives = 29/55 (52%)
Query: 77 GKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLAD 131
G + T GN G G+A+ A G K ++ MP ++ ER +RA GAE + D
Sbjct: 112 GDITFVTATDGNHGRGVAWAANQLGQKSVVYMPKGSAQERLENIRAEGAECTITD 166
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 39.6 bits (93), Expect = 8e-04
Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 7/59 (11%)
Query: 69 EEKGLITPGKSVLIETTGGNTGIGLAFI--AALRGYKLIIVMPSIASMERRIVLRALGA 125
++ + PG++VL+ G G+G A I A G ++ V ++S E+ +L+ LGA
Sbjct: 135 FDRAGLKPGETVLV--HGAAGGVGSAAIQLAKALGATVVAV---VSSSEKLELLKELGA 188
>gnl|CDD|130808 TIGR01747, diampropi_NH3ly, diaminopropionate ammonia-lyase family.
This small subfamily includes diaminopropionate
ammonia-lyase from Salmonella typhimurium and a small
number of close homologs, about 50 % identical in
sequence. The enzyme is a pyridoxal phosphate-binding
homodimer homologous to threonine dehydratase (threonine
deaminase) [Energy metabolism, Other].
Length = 376
Score = 39.5 bits (92), Expect = 0.001
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 77 GKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLAD 131
G++ T GN G G+A+ A G K ++ MP ++ ER + LGAE + D
Sbjct: 93 GQATFATATDGNHGRGVAWAAQQLGQKAVVYMPKGSAQERVENILNLGAECTITD 147
>gnl|CDD|181283 PRK08197, PRK08197, threonine synthase; Validated.
Length = 394
Score = 39.2 bits (92), Expect = 0.001
Identities = 31/95 (32%), Positives = 41/95 (43%), Gaps = 11/95 (11%)
Query: 40 VARIAAKLEMMEPCCSVKDR---IALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFI 96
+ R+ K E + P S K R + +S K+ K L P T GN G A
Sbjct: 94 IGRLWVKDEGLNPTGSFKARGLAVGVSRAKELGVKHLAMP--------TNGNAGAAWAAY 145
Query: 97 AALRGYKLIIVMPSIASMERRIVLRALGAEVYLAD 131
AA G + I MP+ A R+ GAE+YL D
Sbjct: 146 AARAGIRATIFMPADAPEITRLECALAGAELYLVD 180
>gnl|CDD|235918 PRK07048, PRK07048, serine/threonine dehydratase; Validated.
Length = 321
Score = 38.8 bits (91), Expect = 0.001
Identities = 41/141 (29%), Positives = 54/141 (38%), Gaps = 23/141 (16%)
Query: 87 GNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLAD-QAGGFEGILRK--G 143
GN +A A L G IVMP A + R G EV D E I R+
Sbjct: 81 GNHAQAIALSARLLGIPATIVMPQDAPAAKVAATRGYGGEVVTYDRYTEDREEIGRRLAE 140
Query: 144 EEILSNTPNGFMFRQFENPANPKIHYE------TTGPEIWKDSGGDVDILVAGIGTGGTV 197
E L+ P P H T E++ + G +D L +G GG +
Sbjct: 141 ERGLTLIP-------------PYDHPHVIAGQGTAAKELF-EEVGPLDALFVCLGGGGLL 186
Query: 198 TGSGRFLKEKNPNIKVYGVEP 218
+G + +P KVYGVEP
Sbjct: 187 SGCALAARALSPGCKVYGVEP 207
>gnl|CDD|223572 COG0498, ThrC, Threonine synthase [Amino acid transport and
metabolism].
Length = 411
Score = 38.5 bits (90), Expect = 0.002
Identities = 25/87 (28%), Positives = 37/87 (42%), Gaps = 6/87 (6%)
Query: 42 RIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRG 101
+ K P S KDR ++ A+E G T ++ + GNTG A AA G
Sbjct: 95 NLYVKELGHNPTGSFKDRGMTVLVSLAKELGAKT-----ILCASSGNTGASAAAYAARAG 149
Query: 102 YKLIIVMPS-IASMERRIVLRALGAEV 127
K+ ++ P S + + LGA V
Sbjct: 150 LKVFVLYPKGKVSPGKLAQMLTLGAHV 176
>gnl|CDD|236186 PRK08206, PRK08206, diaminopropionate ammonia-lyase; Provisional.
Length = 399
Score = 38.3 bits (90), Expect = 0.002
Identities = 25/73 (34%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 65 IKDAEEKGLITP------GKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRI 118
I + + L + G T GN G G+A+ A G K +I MP +S ER
Sbjct: 97 ISELSFEELTSGEVREKLGDITFATATDGNHGRGVAWAAQQLGQKAVIYMPKGSSEERVD 156
Query: 119 VLRALGAEVYLAD 131
+RALGAE + D
Sbjct: 157 AIRALGAECIITD 169
>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 = 38.0 bits (89), Expect = 0.003
Identities = 44/175 (25%), Positives = 68/175 (38%), Gaps = 34/175 (19%)
Query: 41 ARIAAKLEMMEPCCSVKDR-IALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAAL 99
+ KLE ++P S K R I K A++ ++ ++GGN G+ A+ A
Sbjct: 16 CNVFLKLENLQPSGSFKIRGIGHLCQKSAKQGLNECVH---VVCSSGGNAGLAAAYAARK 72
Query: 100 RGYKLIIVMPSIASMERRIV--LRALGAEVYLADQAGGFEGILRKGEEILSNTPNGFMFR 157
G IV+P S + R+V LR GA V + + + EE+ N P
Sbjct: 73 LGVPCTIVVPE--STKPRVVEKLRDEGATVVVHGKVWWEADNYLR-EELAENDPGPVYVH 129
Query: 158 QFENPANPKIHYETTGPEIWK-------------DSGGDVDILVAGIGTGGTVTG 199
F++ P IW+ S VD +V +G GG + G
Sbjct: 130 PFDD------------PLIWEGHSSMVDEIAQQLQSQEKVDAIVCSVGGGGLLNG 172
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 38.2 bits (89), Expect = 0.003
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 13/103 (12%)
Query: 25 GNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIET 84
G TP++ N+ KL+ + P S KDR ++++I EKG+ + E
Sbjct: 57 GRTPLIKKGNI--------WFKLDFLNPTGSYKDRGSVTLISYLAEKGI-----KQISED 103
Query: 85 TGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEV 127
+ GN G +A A G ++ I +P AS + + + GAEV
Sbjct: 104 SSGNAGASIAAYGAAAGIEVKIFVPETASGGKLKQIESYGAEV 146
>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 = 23/66 (34%), Positives = 30/66 (45%), Gaps = 13/66 (19%)
Query: 70 EKGLITPGKSVLIETTGGNTGIGLAF--IAALRGYKLIIVMPSIA---SMERRIVLRALG 124
E + PG SVLI T ++ +GLA IA G IA + E+R L ALG
Sbjct: 138 ELAGLRPGDSVLI--TAASSSVGLAAIQIANAAG------ATVIATTRTSEKRDALLALG 189
Query: 125 AEVYLA 130
A +
Sbjct: 190 AAHVIV 195
>gnl|CDD|212492 cd05327, retinol-DH_like_SDR_c_like, retinol dehydrogenase
(retinol-DH), Light dependent Protochlorophyllide
(Pchlide) OxidoReductase (LPOR) and related proteins,
classical (c) SDRs. Classical SDR subgroup containing
retinol-DHs, LPORs, and related proteins. Retinol is
processed by a medium chain alcohol dehydrogenase
followed by retinol-DHs. Pchlide reductases act in
chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. This subgroup includes the human proteins: retinol
dehydrogenase -12, -13 ,and -14, dehydrogenase/reductase
SDR family member (DHRS)-12 , -13 and -X (a DHRS on
chromosome X), and WWOX (WW domain-containing
oxidoreductase), as well as a Neurospora crassa SDR
encoded by the blue light inducible bli-4 gene. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 269
Score = 35.7 bits (83), Expect = 0.014
Identities = 32/136 (23%), Positives = 41/136 (30%), Gaps = 57/136 (41%)
Query: 77 GKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLA--DQAG 134
GK V+I TG N+GIG A L GA V +A ++
Sbjct: 1 GKVVVI--TGANSGIGKE--TARE-------------------LAKRGAHVIIACRNEEK 37
Query: 135 GFEGILRKGEEILSNTPNGFMF------------RQFENPANPKIHYETTGPEIWKDSGG 182
G E EI T N + RQF E +
Sbjct: 38 GEEAA----AEIKKETGNAKVEVIQLDLSSLASVRQF--------------AEEFLARFP 79
Query: 183 DVDILV--AGIGTGGT 196
+DIL+ AGI
Sbjct: 80 RLDILINNAGIMAPPR 95
>gnl|CDD|215524 PLN02970, PLN02970, serine racemase.
Length = 328
Score = 35.8 bits (83), Expect = 0.015
Identities = 34/162 (20%), Positives = 60/162 (37%), Gaps = 21/162 (12%)
Query: 62 LSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLR 121
S+ D EKG++T + GN LA A LRG IV+P A + +
Sbjct: 67 FSLSDDQAEKGVVT--------HSSGNHAAALALAAKLRGIPAYIVVPKNAPACKVDAVI 118
Query: 122 ALGAEVYLADQAGGFEGILRKGEEI---LSNTPNGFMFRQFENPANPKIHYE-TTGPEIW 177
G + + + E + + + + + I + T E
Sbjct: 119 RYGGIITWCEPT------VESREAVAARVQQETGAVLIHPYNDG--RVISGQGTIALEFL 170
Query: 178 KDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPT 219
+ ++D+++ I GG ++G K P+IK+ EP
Sbjct: 171 EQVP-ELDVIIVPISGGGLISGIALAAKAIKPSIKIIAAEPK 211
>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 = 35.1 bits (81), Expect = 0.026
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
Query: 52 PCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPS 110
CS K+ AL ++ +E+G L+ + GNTG A ++A+ G +I+V+P
Sbjct: 96 RTCSFKELEALPTMQRLKERG-----GKTLVVASAGNTGRAFAEVSAITGQPVILVVPK 149
>gnl|CDD|224269 COG1350, COG1350, Predicted alternative tryptophan synthase
beta-subunit (paralog of TrpB) [General function
prediction only].
Length = 432
Score = 35.1 bits (81), Expect = 0.031
Identities = 29/91 (31%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 41 ARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALR 100
ARI K E + P S K AL+ A+++G K + ET G G L+ AAL
Sbjct: 95 ARIYYKYEGVTPTGSHKINTALAQAYYAKKEGA----KRLTTETGAGQWGSALSLAAALF 150
Query: 101 GYKLIIVMPSIASME---RRIVLRALGAEVY 128
G K + M ++ + R+ ++ GAEV
Sbjct: 151 GLKATVFMVRVSYYQKPYRKYLMELYGAEVV 181
>gnl|CDD|235757 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 34.5 bits (80), Expect = 0.038
Identities = 28/90 (31%), Positives = 41/90 (45%), Gaps = 12/90 (13%)
Query: 25 GNTPMVYLNNVVDGC-VARIAAKLEMMEPCCSVKDR---IALSMIKDAEEKGLITPGKSV 80
G TP+ N+ V + K E P S KDR + ++ A E G+ K+V
Sbjct: 66 GGTPLYRCPNLEKELGVKELYVKHEGANPTGSFKDRGMTVGVTK---ALELGV----KTV 118
Query: 81 LIETTGGNTGIGLAFIAALRGYKLIIVMPS 110
+TG NT LA AA G K +++P+
Sbjct: 119 ACASTG-NTSASLAAYAARAGLKCYVLLPA 147
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 33.8 bits (78), Expect = 0.055
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 10/55 (18%)
Query: 77 GKSVLIETTGGNTGIGLA----FIAALRGYKLIIVMPSIASMERRIVLRALGAEV 127
GK+ LI TGG +GIGL F+A G ++ I AS+E LG
Sbjct: 6 GKTALI--TGGTSGIGLETARQFLA--EGARVAITGRDPASLEA--ARAELGESA 54
>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 = 33.8 bits (78), Expect = 0.061
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 68 AEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAE 126
G++ PG +VL+ GG G+ A +A G ++I+ S +E + LGA+
Sbjct: 126 LRRAGVLKPGDTVLVLGAGG-VGLLAAQLAKAAGARVIVTDRSDEKLEL---AKELGAD 180
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 33.5 bits (77), Expect = 0.062
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 7/58 (12%)
Query: 78 KSVLIETTGGNTGIGLAFIAALR--GYKLIIVMPSIASMERRIVLRALGAEVYLADQA 133
K+VLI G + GIG F+ R G+++I A++ L+ALGAE D A
Sbjct: 2 KTVLI--VGASRGIGREFVRQYRADGWRVIATARDAAALAA---LQALGAEALALDVA 54
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 33.7 bits (78), Expect = 0.069
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 85 TGGNTGIGLAFI--AALRGYKLIIVM---PSIASMERRIVLRALGAEVYLAD 131
G N+ +G A I A L G K I V+ P + ++ R L+ALGA+ L +
Sbjct: 153 NGANSAVGQAVIQLAKLLGIKTINVVRDRPDLEELKER--LKALGADHVLTE 202
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 33.5 bits (77), Expect = 0.074
Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 5/55 (9%)
Query: 76 PGKSVLIETTGGNTGIGLAF--IAALRGYKLIIVMPSIASMERRIV-LRALGAEV 127
GK +I TG +G GLAF I A G KL++ +++R + LRA GAEV
Sbjct: 5 AGKVAVI--TGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQGAEV 57
>gnl|CDD|233403 TIGR01415, trpB_rel, pyridoxal-phosphate dependent TrpB-like
enzyme. This model represents a family of
pyridoxal-phosphate dependent enzyme (pfam00291) closely
related to the beta subunit of tryptophan synthase
(TIGR00263). However, the only case in which a member of
this family replaces a member of TIGR00263 is in
Sulfolobus species which contain two sequences which hit
this model, one of which is proximal to the alpha
subunit. In every other case so far, either the species
appears not to make tryptophan (there is no trp synthase
alpha subunit), or a trp synthase beta subunit matching
TIGR00263 is also found [Unknown function, Enzymes of
unknown specificity].
Length = 419
Score = 33.6 bits (77), Expect = 0.091
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 7/93 (7%)
Query: 38 GCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIA 97
G ARI K E + P S K A++ A+ +G K ++ ET G G L+
Sbjct: 82 GTPARIYYKYESVSPTGSHKINTAIAQAYYAKIEGA----KRLVTETGAGQWGSALSLAG 137
Query: 98 ALRGYKLIIVMPSI---ASMERRIVLRALGAEV 127
AL G + + M + R+ ++ GAEV
Sbjct: 138 ALFGLECKVFMVRVSFNQKPYRKYLMELYGAEV 170
>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 = 33.1 bits (76), Expect = 0.095
Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 6/87 (6%)
Query: 25 GNTPMVYLNNVVDGC-VARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIE 83
G TP+ +V + + P S KDR + A E G T VL
Sbjct: 22 GVTPLFRSPALVANVGIKNLYVLELFHNPTLSFKDRGMAVALTKALELGNDT----VLCA 77
Query: 84 TTGGNTGIGLAFIAALRGYKLIIVMPS 110
+TG NTG A A G K++I+ P+
Sbjct: 78 STG-NTGAAAAAYAGKAGVKVVILYPA 103
>gnl|CDD|223959 COG1028, FabG, Dehydrogenases with different specificities (related
to short-chain alcohol dehydrogenases) [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 251
Score = 32.5 bits (74), Expect = 0.14
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 6/34 (17%)
Query: 77 GKSVLIETTGGNTGIGLAFIA---ALRGYKLIIV 107
GK L+ TG ++GIG A IA A G ++++
Sbjct: 5 GKVALV--TGASSGIGRA-IARALAREGARVVVA 35
>gnl|CDD|232897 TIGR00263, trpB, tryptophan synthase, beta subunit. Tryptophan
synthase catalyzes the last step in the biosynthesis of
tryptophan. the beta chain contains the functional
domain for or the synthesis of tryptophan from indole
and serine. The enzyme requires pyridoxal-phosphate as a
cofactor. The pyridoxal-P attachment site is contained
within the conserved region
[LIVM]-x-H-x-G-[STA]-H-K-x-N] [K is the pyridoxal-P
attachment site] which is present between residues
90-100 of the model [Amino acid biosynthesis, Aromatic
amino acid family].
Length = 385
Score = 32.7 bits (75), Expect = 0.14
Identities = 43/191 (22%), Positives = 67/191 (35%), Gaps = 52/191 (27%)
Query: 77 GKSVLI-ETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIV----LRALGAEVYLAD 131
GK +I ET G G+ A AAL G + M + +ER+ + LGA+V
Sbjct: 97 GKKRIIAETGAGQHGVATATAAALLGLDCEVYMGA-EDVERQKPNVFRMELLGAKVIPVT 155
Query: 132 QAGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIHY---ETTGP-------------- 174
G L + N + + + HY GP
Sbjct: 156 ----------SGSGTLKDAVNEALRDWVTSVDD--THYVLGSAVGPHPFPTMVRDFQSVI 203
Query: 175 ------EIWKDSGGDVDILVAGIGTGGTVTGS-GRFLKEKNPNIKVYGVE--------PT 219
+I + G D ++A +G G G F+ +P++++ GVE
Sbjct: 204 GEEAKEQILEQEGRLPDAVIACVGGGSNAIGIFYAFID--DPSVQLIGVEAGGLGIDTDK 261
Query: 220 ESAMLNGGQPG 230
+A L G PG
Sbjct: 262 HAATLAKGSPG 272
>gnl|CDD|235539 PRK05638, PRK05638, threonine synthase; Validated.
Length = 442
Score = 32.9 bits (75), Expect = 0.16
Identities = 22/103 (21%), Positives = 40/103 (38%), Gaps = 6/103 (5%)
Query: 25 GNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIET 84
G TP++ + K E P S +DR+A + + + I
Sbjct: 65 GGTPLIRARISEKLGEN-VYIKDETRNPTGSFRDRLATVAVSYG-----LPYAANGFIVA 118
Query: 85 TGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEV 127
+ GN +A +A G + +V+P + I + A GA++
Sbjct: 119 SDGNAAASVAAYSARAGKEAFVVVPRKVDKGKLIQMIAFGAKI 161
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 32.2 bits (74), Expect = 0.16
Identities = 15/27 (55%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 77 GKSVLIETTGGNTGIGLAFIAAL--RG 101
GK VL+ TG N GIG AF+ L RG
Sbjct: 6 GKVVLV--TGANRGIGRAFVEQLLARG 30
>gnl|CDD|236013 PRK07409, PRK07409, threonine synthase; Validated.
Length = 353
Score = 32.5 bits (75), Expect = 0.20
Identities = 31/98 (31%), Positives = 50/98 (51%), Gaps = 15/98 (15%)
Query: 19 DATQLI----GNTPMVYLNNVVD--GCVARIAAKLEMMEPCCSVKDRIALSM-IKDAEEK 71
D T ++ GNTP++ N+ + G + K E + P S KDR ++M + A+E+
Sbjct: 20 DDTPVVTLGEGNTPLIPAPNLSELLGV--EVYVKYEGLNPTGSFKDR-GMTMAVTKAKEE 76
Query: 72 GLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMP 109
G K+V+ +T GNT A AA G K +++P
Sbjct: 77 G----AKAVICAST-GNTSASAAAYAARAGLKAFVLIP 109
>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 = 32.3 bits (74), Expect = 0.21
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 70 EKGLITPGKSVLIETTGGNTGIGLAFI--AALRGYKLIIVMPSIASMERRIVLRALGAEV 127
E+ + G++VL+ TG + G+G A + A RG +I ++A + +RALGA+
Sbjct: 171 ERAGVGAGETVLV--TGASGGVGSALVQLAKRRGAIVI----AVAGAAKEEAVRALGADT 224
Query: 128 YLADQAGGFEGILRKGEE 145
+ A G E
Sbjct: 225 VILRDAPLLADAKALGGE 242
>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 = 32.3 bits (74), Expect = 0.21
Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 62 LSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLR 121
+ A ++ + G +VL+ GG GI +A G ++I V S E+ +L+
Sbjct: 148 VGTAVHALKRAGVKKGDTVLVTGAGGGVGIHAIQLAKALGARVIAVT---RSPEKLKILK 204
Query: 122 ALGAEV 127
LGA+
Sbjct: 205 ELGADY 210
>gnl|CDD|227070 COG4726, PilX, Tfp pilus assembly protein PilX [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 196
Score = 31.7 bits (72), Expect = 0.22
Identities = 29/132 (21%), Positives = 41/132 (31%), Gaps = 39/132 (29%)
Query: 100 RGYKLIIVMPSI-------------ASMERRIVLRALGAEVYLADQAGGFEGILRKGEEI 146
RG+ LI+V+ + ++ RI A + LA QA E LR+GE
Sbjct: 13 RGFALIVVLMVLVVLTLLGLAAARSVLLQERIS--ANERDRSLAFQAA--EAALREGELQ 68
Query: 147 LSN-----TPNGFMFRQFENPANPKIHYET-----------------TGPEIWKDSGGDV 184
++N T + F A P G E WK S +
Sbjct: 69 INNATAYPTSSACNFTANNCGAGPCNAVNGRLNGDCSSAPDNPVVVPKGVEAWKRSSDAL 128
Query: 185 DILVAGIGTGGT 196
G G
Sbjct: 129 STTTLGDNIGIE 140
>gnl|CDD|176234 cd08273, MDR8, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 331
Score = 32.2 bits (74), Expect = 0.23
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 8/52 (15%)
Query: 76 PGKSVLIETTGGNTGIGLAFI--AALRGYKLIIVMPSIASMERRIVLRALGA 125
G+ VLI G + G+G A + A L G ++ AS LR LGA
Sbjct: 139 TGQRVLI--HGASGGVGQALLELALLAGAEVY----GTASERNHAALRELGA 184
>gnl|CDD|107207 cd06446, Trp-synth_B, Tryptophan synthase-beta: Trptophan synthase
is a bifunctional enzyme that catalyses the last two
steps in the biosynthesis of L-tryptophan via its alpha
and beta reactions. In the alpha reaction, indole
3-glycerol phosphate is cleaved reversibly to
glyceraldehyde 3-phosphate and indole at the active site
of the alpha subunit. In the beta reaction, indole
undergoes a PLP-dependent reaction with L-serine to form
L-tryptophan at the active site of the beta subunit.
Members of this CD, Trp-synth_B, are found in all three
major phylogenetic divisions.
Length = 365
Score = 32.1 bits (74), Expect = 0.27
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 77 GKSVLI-ETTGGNTGIGLAFIAALRGYKLIIVMPSIASMER----RIVLRALGAEVY 128
GK +I ET G G+ A AL G + I M ++ +ER + LGAEV
Sbjct: 81 GKKRVIAETGAGQHGVATATACALFGLECEIYMGAV-DVERQPLNVFRMELLGAEVV 136
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 31.7 bits (73), Expect = 0.28
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 7/58 (12%)
Query: 77 GKSVLIETTGGNTGIGLAFIA---ALRGYKLIIVMPSIASMERRI-VLRALGAEVYLA 130
GK+ L+ TG + GIG A IA A G K++I + + E LRA G E +
Sbjct: 5 GKTALV--TGASRGIGRA-IALRLAADGAKVVIYDSNEEAAEALAAELRAAGGEARVL 59
>gnl|CDD|236339 PRK08813, PRK08813, threonine dehydratase; Provisional.
Length = 349
Score = 31.9 bits (72), Expect = 0.28
Identities = 48/185 (25%), Positives = 75/185 (40%), Gaps = 22/185 (11%)
Query: 46 KLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLI 105
KLE ++ S K R AL+ + E+G P +I + GN G+A+ A G + I
Sbjct: 53 KLENLQRTGSYKVRGALNALLAGLERGDERP----VICASAGNHAQGVAWSAYRLGVQAI 108
Query: 106 IVMPSIASMERRIVLRALGAEVYLA----DQAGGFEGILRKGEEILSNTPNGFMFRQFEN 161
VMP A + + GA V D+A F L NG+ F +
Sbjct: 109 TVMPHGAPQTKIAGVAHWGATVRQHGNSYDEAYAFARELAD--------QNGYRFLSAFD 160
Query: 162 PANPKIHYETTGPEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNI---KVYGVEP 218
+ T G E+ + D+++ IG GG +G LK + + +V GV+
Sbjct: 161 DPDVIAGQGTVGIEL---AAHAPDVVIVPIGGGGLASGVALALKSQGVRVVGAQVEGVDS 217
Query: 219 TESAM 223
A+
Sbjct: 218 MARAI 222
>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 = 31.8 bits (73), Expect = 0.30
Identities = 14/50 (28%), Positives = 24/50 (48%)
Query: 175 EIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESAML 224
K + + ILV G G G V + + +E +K+Y VE +A++
Sbjct: 179 PEKKKTSSTLVILVVGAGRGPLVDRALKAAEETGRKVKIYAVEKNPNAVV 228
>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 = 31.1 bits (71), Expect = 0.40
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 74 ITPGKSVLIETTGGNTGIGLAFIAAL--RGYKLIIV 107
G +VLI TGG +GIGLA G +II
Sbjct: 2 KLTGNTVLI--TGGTSGIGLALARKFLEAGNTVIIT 35
>gnl|CDD|197841 smart00714, LITAF, Possible membrane-associated motif in
LPS-induced tumor necrosis factor alpha factor (LITAF),
also known as PIG7, and other animal proteins.
Length = 67
Score = 28.8 bits (65), Expect = 0.50
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 228 QPGRLLFFLFFLFFFCFFFSFWPF 251
+ G L + + FL FF F P
Sbjct: 20 ETGVLAWLICFLLFFLCFCCCLPC 43
>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 = 31.0 bits (71), Expect = 0.57
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 70 EKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGA 125
G + PG +VL++ TGG + L F A G ++I S +ER +ALGA
Sbjct: 154 GLGPLKPGDTVLVQGTGGVSLFALQF-AKAAGARVIATSSSDEKLER---AKALGA 205
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 30.2 bits (69), Expect = 0.64
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 9/56 (16%)
Query: 79 SVLIETTGGNTGIGLAFIAAL--RGYKLIIVM----PSIASMERRI-VLRALGAEV 127
+ L+ TGG G+GL L RG + ++++ E + L A GAEV
Sbjct: 2 TYLV--TGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAEV 55
>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 = 30.9 bits (70), Expect = 0.64
Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 60 IALSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIV 119
+ L++I DA + + G+ +LI+T G TG+ +A L+G + + +S ++
Sbjct: 105 VFLTVI-DAFARAGLAKGEHILIQTATGGTGLMAVQLARLKG---AEIYATASSDDKLEY 160
Query: 120 LRALG 124
L+ LG
Sbjct: 161 LKQLG 165
>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 = 30.7 bits (70), Expect = 0.72
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 13/77 (16%)
Query: 74 ITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGA-EVY---- 128
+ PG ++LI GG + +GLA + + V + S ER +L+ LGA EV
Sbjct: 140 LQPGDTLLIR--GGTSSVGLAALKLAKALGA-TVTATTRSPERAALLKELGADEVVIDDG 196
Query: 129 -----LADQAGGFEGIL 140
L GGF+ +L
Sbjct: 197 AIAEQLRAAPGGFDKVL 213
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. 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 = 30.4 bits (69), Expect = 0.81
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 77 GKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSI 111
GK L+ TG + GIG + L IV+ S
Sbjct: 5 GKVALV--TGASRGIGFGIASGLAEAGANIVINSR 37
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 29.9 bits (68), Expect = 0.96
Identities = 38/128 (29%), Positives = 51/128 (39%), Gaps = 34/128 (26%)
Query: 75 TPGKSVLIETTGGNTGIGLAF--IAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQ 132
GK+ LI TG ++GIG A RGY LI+V R L AL E L D+
Sbjct: 4 MKGKTALI--TGASSGIGAELAKQLARRGYNLILV------ARREDKLEALAKE--LEDK 53
Query: 133 AGGFEGILRKGEEILSNTPNGFMFRQFENPANPKIHYETTGPEIWKDSGGDVDILV--AG 190
G ++ LS+ ++ E K+ GG +D+LV AG
Sbjct: 54 TGVEVEVIPAD---LSDPEALE-----------RLEDEL------KERGGPIDVLVNNAG 93
Query: 191 IGTGGTVT 198
GT G
Sbjct: 94 FGTFGPFL 101
>gnl|CDD|216975 pfam02326, YMF19, Plant ATP synthase F0. This family corresponds
to subunit 8 (YMF19) of the F0 complex of plant and
algae mitochondrial F-ATPases (EC:3.6.1.34).
Length = 84
Score = 28.5 bits (64), Expect = 0.97
Identities = 8/22 (36%), Positives = 9/22 (40%), Gaps = 4/22 (18%)
Query: 234 FFLFFLFFFCFFF----SFWPF 251
FF LFFF F+ P
Sbjct: 12 FFWLCLFFFTFYIFLLNFILPK 33
>gnl|CDD|223651 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 532
Score = 29.9 bits (68), Expect = 1.2
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 86 GGNTGIGLAFIAALRGYKLIIV-MPSIAS 113
GG TG G+A AA RG K+ +V +AS
Sbjct: 20 GGITGAGIARDAAGRGLKVALVEKGDLAS 48
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 30.3 bits (69), Expect = 1.2
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 77 GKSVLIETTGGNTGIGL--AFIAALRGYKLIIV 107
GK VLI TG ++GIG A A G + +V
Sbjct: 371 GKVVLI--TGASSGIGRATAIKVAEAGATVFLV 401
>gnl|CDD|177150 MTH00083, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 256
Score = 29.5 bits (67), Expect = 1.3
Identities = 8/22 (36%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 232 LLFFLF--FLFFFCFFFSFWPF 251
++ F+F F+FFF F++F+
Sbjct: 79 MILFIFSEFMFFFSIFWTFFDA 100
>gnl|CDD|176232 cd08271, MDR5, 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 = 325
Score = 29.6 bits (67), Expect = 1.4
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 8/59 (13%)
Query: 69 EEKGLITPGKSVLIETTGGNTGIG--LAFIAALRGYKLIIVMPSIASMERRIVLRALGA 125
+K I G+++LI TGG G+G +A G + +I S + E +++LGA
Sbjct: 134 FKKLRIEAGRTILI--TGGAGGVGSFAVQLAKRAGLR-VITTCSKRNFEY---VKSLGA 186
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 29.5 bits (67), Expect = 1.5
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 76 PGKSVLIETTGGNTGIGLAFIAAL--RGYKLIIVMPSIASMERR 117
K VL+ TG + GIG A AL G +L++V + +E
Sbjct: 4 KDKRVLL--TGASGGIGQALAEALAAAGARLLLVGRNAEKLEAL 45
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. 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 prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, 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 = 234
Score = 29.2 bits (66), Expect = 1.7
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 6/31 (19%)
Query: 80 VLIETTGGNTGIGLAFIA---ALRGYKLIIV 107
L+ TG ++GIG A IA A G K+++
Sbjct: 1 ALV--TGASSGIGRA-IARRLAREGAKVVLA 28
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. 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 prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, 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 KRs 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 = 436
Score = 29.6 bits (67), Expect = 1.8
Identities = 22/64 (34%), Positives = 30/64 (46%), Gaps = 11/64 (17%)
Query: 74 ITPGKSVLIETTGGNTGIGLAFIAAL-RGY--KLIIV-----MPSIASMERRI-VLRALG 124
+ PG L+ TGG GIG A AL R Y +L+++ P + + L ALG
Sbjct: 202 LKPGGVYLV--TGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKAQTLAALEALG 259
Query: 125 AEVY 128
A V
Sbjct: 260 ARVL 263
>gnl|CDD|176645 cd05282, ETR_like, 2-enoyl thioester reductase-like. 2-enoyl
thioester reductase (ETR) catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity has
been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the alcohol
dehydrogenases in this family. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Candida tropicalis enoyl thioester reductase (Etr1p)
catalyzes the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 323
Score = 29.2 bits (66), Expect = 1.9
Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 7/76 (9%)
Query: 69 EEKGLITPGKSVLIETTGGNTGIGLAFI--AALRGYKLIIVMPSIASMERRIVLRALGAE 126
E + PG V+ N+ +G I A L G+K I V+ +E L+ALGA+
Sbjct: 131 TEYLKLPPGDWVIQ--NAANSAVGRMLIQLAKLLGFKTINVVRRDEQVEE---LKALGAD 185
Query: 127 VYLADQAGGFEGILRK 142
+ +++
Sbjct: 186 EVIDSSPEDLAQRVKE 201
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 29.2 bits (66), Expect = 1.9
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 76 PGKSVLIETTGGNTGIGLAFIAAL 99
GK L+ TG G+G AF AL
Sbjct: 6 AGKRALV--TGAARGLGAAFAEAL 27
>gnl|CDD|212071 cd11502, SLC6sbd_NTT5, Neurotransmitter transporter 5;
solute-binding domain. Human NTT5 is encoded by the
SLC6A16 gene. NTT5 is expressed in testis, pancreas, and
prostate; its expression is predominantly intracellular,
indicative of a vesicular location. Its substrates are
unknown. This subgroup belongs to the solute carrier 6
(SLC6) transporter family.
Length = 543
Score = 29.3 bits (66), Expect = 2.1
Identities = 19/76 (25%), Positives = 30/76 (39%), Gaps = 12/76 (15%)
Query: 174 PEIWKDSGGDVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESAMLNGGQPGRLL 233
IW+ +GG V + G+G G +T + ++ N + V A++N LL
Sbjct: 232 LSIWRVAGGQV-LFSLGLGFGTLITYASYMPRKNNCLTDAFVV-----ALVN------LL 279
Query: 234 FFLFFLFFFCFFFSFW 249
L F FW
Sbjct: 280 TSLIATPIFFAVMGFW 295
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 27.7 bits (62), Expect = 2.2
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 187 LVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEPTESAM 223
L G GTG R L E P ++ GV+ + +A+
Sbjct: 1 LDIGCGTGTL----LRALLEALPGLEYTGVDISPAAL 33
>gnl|CDD|184335 PRK13802, PRK13802, bifunctional indole-3-glycerol phosphate
synthase/tryptophan synthase subunit beta; Provisional.
Length = 695
Score = 29.2 bits (65), Expect = 2.3
Identities = 23/57 (40%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 77 GKS-VLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVL-----RALGAEV 127
GK+ V+ ET G G+ A + A+ G K I M I + RR L R LGAEV
Sbjct: 378 GKTRVIAETGAGQHGVATATVCAMLGLKCRIYMGQIDA--RRQALNVARMRMLGAEV 432
>gnl|CDD|240362 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2
gamma subunit; Provisional.
Length = 460
Score = 28.8 bits (65), Expect = 2.7
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 45 AKLEMMEP-CCSVKDRIALS 63
AKLE+ P C SV ++IALS
Sbjct: 415 AKLELTTPVCTSVGEKIALS 434
>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 = 2.9
Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 23/59 (38%)
Query: 70 EKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVY 128
+ + G+SVLI G+G A I + + LGAEV+
Sbjct: 102 DLARLQKGESVLI--HAAAGGVGQAAIQ---------------------LAQHLGAEVF 137
>gnl|CDD|237513 PRK13803, PRK13803, bifunctional phosphoribosylanthranilate
isomerase/tryptophan synthase subunit beta; Provisional.
Length = 610
Score = 29.0 bits (65), Expect = 3.0
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 77 GKSVLIETTG-GNTGIGLAFIAALRGYKLIIVMPSIASMERRIV----LRALGAEV 127
GK+ +I TG G G+ A AL G K I M ++R+ + ++ LGA V
Sbjct: 317 GKTRIIAETGAGQHGVATATACALFGLKCTIFMGEE-DIKRQALNVERMKLLGANV 371
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. 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 = 239
Score = 28.4 bits (64), Expect = 3.1
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 77 GKSVLIETTGGNTGIGLAF--IAALRGYKLIIVMPS 110
GK VLI TGG++GIG A G +IIV S
Sbjct: 1 GKHVLI--TGGSSGIGKALAKELVKEGANVIIVARS 34
>gnl|CDD|188164 TIGR01751, crot-CoA-red, crotonyl-CoA reductase. The enzyme
modelled by This model is responsible for the conversion
of crotonyl-CoA reductase to butyryl-CoA. In serine
cycle methylotrophic bacteria this enzyme is involved in
the process of acetyl-CoA to glyoxylate. In other
bacteria the enzyme is used to produce butyrate for
incorporation into polyketides such as tylosin from
Streptomyces fradiae and coronatine from Pseudomonas
syringae.
Length = 398
Score = 28.6 bits (64), Expect = 3.1
Identities = 31/120 (25%), Positives = 47/120 (39%), Gaps = 22/120 (18%)
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLADQAGG 135
PG +VLI G G +A G + V ++S E+ R+LGAE + G
Sbjct: 189 PGDNVLIWGAAGGLGSYATQLARAGGGNPVAV---VSSPEKAEYCRSLGAEAVIDRNDFG 245
Query: 136 FEGILRKGEEILSNTPNGFM--FRQFENPANPKIHYETTGPEIWKDSGG-DVDILVAGIG 192
G L + + P + F++F G I + +GG D DI+ G
Sbjct: 246 HWGRL---PDHNTQAPKEWTKSFKRF-------------GKRIRELTGGEDPDIVFEHPG 289
>gnl|CDD|223211 COG0133, TrpB, Tryptophan synthase beta chain [Amino acid transport
and metabolism].
Length = 396
Score = 28.7 bits (65), Expect = 3.1
Identities = 50/189 (26%), Positives = 83/189 (43%), Gaps = 44/189 (23%)
Query: 77 GKSVLI-ETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERRIV----LRALGAEVYLAD 131
GK+ +I ET G G+ A AAL G + +I M + +ER+ + +R LGAEV +
Sbjct: 102 GKTRIIAETGAGQHGVATATAAALFGLECVIYMGAE-DVERQALNVFRMRLLGAEV-VPV 159
Query: 132 QAGGFEGILRKG--EEI------LSNT---------PNGF--MFRQFENPANPKIHYETT 172
+G G L+ E + + +T P+ + + R F+ + E
Sbjct: 160 TSG--SGTLKDAINEALRDWVTNVEDTHYLIGSAAGPHPYPTIVRDFQ-----SVIGEEA 212
Query: 173 GPEIWKDSGGDVDILVAGIGTGGTVTGS-GRFLKEKNPNIKVYGVEP------TE--SAM 223
+I + G D +VA +G G G F+ + ++++ GVE T +A
Sbjct: 213 KAQILEKEGRLPDAVVACVGGGSNAIGIFHPFIDD--ESVRLIGVEAAGKGIETGKHAAT 270
Query: 224 LNGGQPGRL 232
L G+PG L
Sbjct: 271 LTAGRPGVL 279
>gnl|CDD|236412 PRK09204, secY, preprotein translocase subunit SecY; Reviewed.
Length = 426
Score = 28.6 bits (65), Expect = 3.2
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 221 SAMLNGGQPGRLLFFLFFLFFFCFFFSF 248
+ L+ G P +L + + FF FF++
Sbjct: 300 ANYLSPGSPLYILLYALLIIFFTFFYTA 327
>gnl|CDD|239626 cd03569, VHS_Hrs_Vps27p, VHS domain family, Hrs and Vps27p
subfamily; composed of Hrs (Hepatocyte growth
factor-regulated tyrosine kinase substrate) and its
yeast homolog Vps27p (vacuolar protein sorting). The VHS
domain, an essential part of Hrs/Vps27p, has a
superhelical structure similar to the structure of ARM
(Armadillo) repeats and is present at the N-termini of
proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p,
and EEA1) zinc finger domain C-terminal to VHS, as well
as two coiled-coil domains. Hrs has been proposed to
play a role in at least three vesicle trafficking
events: exocytosis, endocytosis, and endosome to
lysosome trafficking. Hrs is involved in promoting rapid
recycling of endocytosed signaling receptors to the
plasma membrane.
Length = 142
Score = 28.0 bits (63), Expect = 3.2
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 204 LKEKNPNIKVYGVEPTESAMLNGGQP 229
L KNPN+++Y + ES + N G
Sbjct: 50 LLSKNPNVQLYALLLLESCVKNCGTH 75
>gnl|CDD|214443 MTH00163, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 445
Score = 28.6 bits (65), Expect = 3.4
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 232 LLFFLFFLFFFCFFFSFW 249
LF L FL CF + W
Sbjct: 4 FLFMLLFLIPLCFLKNSW 21
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
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
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
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 KRs 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 = 375
Score = 28.5 bits (64), Expect = 3.8
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 79 SVLIETTGGNTGIGLAFIAAL--RGYKLIIVM------PSIASMERRIVLRALGAEV 127
+ LI TGG G+GL L RG + ++++ P A+ LRA GA V
Sbjct: 152 TYLI--TGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAAL--LRAGGARV 204
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 28.0 bits (63), Expect = 4.3
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 78 KSVLIETTGGNTGIG--LAFIAALRGYKLIIVMPSIASMERRIVLRALGAEVYLAD 131
K VLI TG ++GIG LA A +GY++I + +E L EV D
Sbjct: 1 KVVLI--TGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELLNDNLEVLELD 54
>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 926
Score = 28.4 bits (63), Expect = 4.9
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 1/67 (1%)
Query: 91 IGLAFIAALRGYKLIIVMPSIAS-MERRIVLRALGAEVYLADQAGGFEGILRKGEEILSN 149
IG A G +L I+ ++ + I+ L + L ++ G + ILR EI
Sbjct: 146 IGYLLGIAAEGLRLDIIEKYLSDGNDCDIINYLLDLAITLVEEEGFRKEILRMLAEIGPG 205
Query: 150 TPNGFMF 156
P F
Sbjct: 206 KPKPDYF 212
>gnl|CDD|224361 COG1444, COG1444, Predicted P-loop ATPase fused to an
acetyltransferase [General function prediction only].
Length = 758
Score = 28.1 bits (63), Expect = 5.0
Identities = 27/92 (29%), Positives = 36/92 (39%), Gaps = 23/92 (25%)
Query: 77 GKSVLIETTGGNTGIGLAFIAALRGYKLIIVM-PSIAS----MERRI-VLRALGAEVYLA 130
GKS + GI LA A L G IIV P+ A+ E L LG + +A
Sbjct: 243 GKSAAL-------GIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGLEFLGYKRKVA 295
Query: 131 DQAGGFEGILRKGEEILSNTPNGFMFRQFENP 162
A G EI + +GF ++ P
Sbjct: 296 PDALG---------EIREVSGDGF-RIEYVPP 317
>gnl|CDD|226476 COG3967, DltE, Short-chain dehydrogenase involved in D-alanine
esterification of lipoteichoic acid and wall teichoic
acid (D-alanine transfer protein) [Cell envelope
biogenesis, outer membrane].
Length = 245
Score = 27.8 bits (62), Expect = 5.0
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 75 TPGKSVLIETTGGNTGIGLAFIAALR--GYKLII 106
T G ++LI TGG +GIGLA G +II
Sbjct: 3 TTGNTILI--TGGASGIGLALAKRFLELGNTVII 34
>gnl|CDD|176876 cd08867, START_STARD4_5_6-like, Lipid-binding START domain of
mammalian STARD4, -5, -6, and related proteins. This
subfamily includes the steroidogenic acute regulatory
protein (StAR)-related lipid transfer (START) domains of
mammalian STARD4, -5, and -6. The START domain family
belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. STARD4 plays an important role in
steroidogenesis, trafficking cholesterol into
mitochondria. It specifically binds cholesterol, and
demonstrates limited binding to another sterol,
7a-hydroxycholesterol. STARD4 and STARD5 are
ubiquitously expressed, with highest levels in liver and
kidney. STRAD5 functions in the kidney within the
proximal tubule cells where it is associated with the
Endoplasmic Reticulum (ER), and may participate in
ER-associated cholesterol transport. It binds
cholesterol and 25-hydroxycholesterol. Expression of the
gene encoding STARD5 is increased by ER stress, and its
mRNA and protein levels are elevated in a type I
diabetic mouse model of human diabetic nephropathy.
STARD6 is expressed in male germ cells of normal rats,
and in the steroidogenic Leydig cells of perinatal
hypothyroid testes. It may play a pivotal role in the
steroidogenesis as well as in the spermatogenesis of
normal rats. STARD6 has also been detected in the rat
nervous system, and may participate in neurosteroid
synthesis.
Length = 206
Score = 27.8 bits (62), Expect = 5.2
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 37 DGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPGKSV 80
D CV R M S +D + L +K E+ + GKSV
Sbjct: 92 DLCVGRTITPSAAMG-LISPRDFVDLVYVKRYEDNQWSSSGKSV 134
>gnl|CDD|237087 PRK12391, PRK12391, tryptophan synthase subunit beta; Reviewed.
Length = 427
Score = 27.8 bits (63), Expect = 5.2
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 5/50 (10%)
Query: 83 ETTGGNTGIGLAFIAALRGYKLIIVMPSIASME----RRIVLRALGAEVY 128
ET G G LA AL G + + M + S E RR ++ GAEV
Sbjct: 132 ETGAGQWGSALALACALFGLECTVFMVRV-SYEQKPYRRSLMETYGAEVI 180
>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 = 27.9 bits (62), Expect = 5.3
Identities = 38/160 (23%), Positives = 62/160 (38%), Gaps = 23/160 (14%)
Query: 87 GNTGIGLAFIAALRGYKLIIVMPSIASMERRIVLRALGAEV--YLADQAGGFEGILRKGE 144
GN G+ + I+A G+++ + M + A ++ LR+ G V Y +D E +G
Sbjct: 161 GNLGLSIGIISAALGFQVTVHMSADARQWKKDKLRSHGVTVVEYESDYGVAVE----EGR 216
Query: 145 EILSNTPNGFMFRQFENPANPKIHYETTGPEIWK--DSGG-----DVDILV-----AGIG 192
+ + PN + F EN + Y + D G + + V G G
Sbjct: 217 KAAQSDPNCY-FIDDENSRTLFLGYAVAASRLKAQFDQQGIIVDAEHPLFVYLPCGVGGG 275
Query: 193 TGGTVTGSGRFLKEKNPNIKVYGVEPTES-AMLNGGQPGR 231
GG G + ++ + EPT S ML G G
Sbjct: 276 PGGVAFGLKLAFGD---HVHCFFAEPTHSPCMLLGVYTGL 312
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 28.1 bits (63), Expect = 5.3
Identities = 14/49 (28%), Positives = 22/49 (44%)
Query: 62 LSMIKDAEEKGLITPGKSVLIETTGGNTGIGLAFIAALRGYKLIIVMPS 110
M+ + + G++VL+ GG GI +A G K+I V S
Sbjct: 148 TGMVYRGLRRAGVKKGETVLVTGAGGGVGIHAIQVAKALGAKVIAVTSS 196
>gnl|CDD|147996 pfam06129, Chordopox_G3, Chordopoxvirus G3 protein. This family
consists of several Chordopoxvirus specific G3 proteins.
The function of this family is unknown.
Length = 109
Score = 26.9 bits (60), Expect = 5.3
Identities = 10/21 (47%), Positives = 16/21 (76%), Gaps = 2/21 (9%)
Query: 232 LLFFLFFLFFF--CFFFSFWP 250
LL+ LFF+ F C+FF+++P
Sbjct: 3 LLYLLFFILFLLLCYFFNYYP 23
>gnl|CDD|187584 cd05323, ADH_SDR_c_like, insect type alcohol dehydrogenase
(ADH)-like, classical (c) SDRs. This subgroup contains
insect type ADH, and 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) type I; these proteins are
classical SDRs. ADH catalyzes the NAD+-dependent
oxidation of alcohols to aldehydes/ketones. This
subgroup is distinct from the zinc-dependent alcohol
dehydrogenases of the medium chain
dehydrogenase/reductase family, and evolved in fruit
flies to allow the digestion of fermenting fruit.
15-PGDH catalyzes the NAD-dependent interconversion of
(5Z,13E)-(15S)-11alpha,15-dihydroxy-9-oxoprost-13-enoate
and (5Z,13E)-11alpha-hydroxy-9,15-dioxoprost-13-enoate,
and has a typical SDR glycine-rich NAD-binding motif,
which is not fully present in ADH. 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 = 244
Score = 27.7 bits (62), Expect = 5.5
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 78 KSVLIETTGGNTGIGLAFIAAL--RGYKLIIVMPSIASMERRIVLRALGAE 126
K +I TGG +GIGLA L +G K+ I + E L A
Sbjct: 1 KVAII--TGGASGIGLATAKLLLKKGAKVAI----LDRNENPGAAAELQAI 45
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 27.8 bits (62), Expect = 5.6
Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 77 GKSVLIETTGGNTGIGLAFIAAL 99
GK ++ TGGNTG+G + AL
Sbjct: 15 GKVAIV--TGGNTGLGQGYAVAL 35
>gnl|CDD|181346 PRK08275, PRK08275, putative oxidoreductase; Provisional.
Length = 554
Score = 27.7 bits (62), Expect = 6.3
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 183 DVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVE 217
+ DILV G GT G + KE+NP ++V +E
Sbjct: 9 ETDILVIGGGTAGPMAAIKA--KERNPALRVLLLE 41
>gnl|CDD|183851 PRK13028, PRK13028, tryptophan synthase subunit beta; Provisional.
Length = 402
Score = 27.5 bits (62), Expect = 6.5
Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 6/56 (10%)
Query: 77 GKSVLI-ETTGGNTGIGLAFIAALRGYKLIIVMPSIASMERR----IVLRALGAEV 127
GK LI ET G G+ A AAL G + I M + +ER+ ++ LGAEV
Sbjct: 109 GKKRLIAETGAGQHGVATATAAALFGLECEIYMGEV-DIERQHPNVFRMKLLGAEV 163
>gnl|CDD|187610 cd05352, MDH-like_SDR_c, mannitol dehydrogenase (MDH)-like,
classical (c) SDRs. NADP-mannitol dehydrogenase
catalyzes the conversion of fructose to mannitol, an
acyclic 6-carbon sugar. MDH is a tetrameric member of
the SDR family. This subgroup also includes various
other tetrameric SDRs, including Pichia stipitis
D-arabinitol dehydrogenase (aka polyol dehydrogenase),
Candida albicans Sou1p, a sorbose reductase, and
Candida parapsilosis (S)-specific carbonyl reductase
(SCR, aka S-specific alcohol dehydrogenase) which
catalyzes the enantioselective reduction of
2-hydroxyacetophenone into (S)-1-phenyl-1,2-ethanediol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 252
Score = 27.3 bits (61), Expect = 6.7
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 77 GKSVLIETTGGNTGIGLAFIAAL 99
GK ++ TGG+ GIGLA AL
Sbjct: 8 GKVAIV--TGGSRGIGLAIARAL 28
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 27.3 bits (61), Expect = 6.9
Identities = 18/42 (42%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 77 GKSVLIETTGGNTGIGLAFIAAL--RGYKLIIVMPSIASMER 116
GK LI TGG+ GIG A AL GYK+ I +E
Sbjct: 6 GKVALI--TGGSKGIGFAIAEALLAEGYKVAITARDQKELEE 45
>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 1046
Score = 27.6 bits (61), Expect = 7.0
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 20 ATQLIGNTPMVYLNNVVDGCVARIAAKLEMMEPCCSVKDRIALSMIKDAEEKGLITPG 77
AT I + ++ I +E + CCS +DRI + I+D E+ L+ G
Sbjct: 145 ATDKIEGMTPSSVLEEINALTQNI---VEEILECCSQEDRIDIEKIQDIVEQQLMVVG 199
>gnl|CDD|150009 pfam09173, eIF2_C, Initiation factor eIF2 gamma, C terminal.
Members of this family, which are found in the
initiation factors eIF2 and EF-Tu, adopt a structure
consisting of a beta barrel with Greek key topology.
They are required for formation of the ternary complex
with GTP and initiator tRNA.
Length = 88
Score = 26.0 bits (58), Expect = 7.1
Identities = 8/31 (25%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 38 GCVARI---AAKLEMMEP-CCSVKDRIALSM 64
G V + A++E+ P C + +++A+S
Sbjct: 44 GVVTAVKKDLAEVELKRPVCTEIGEKVAISR 74
>gnl|CDD|235879 PRK06854, PRK06854, adenylylsulfate reductase subunit alpha;
Validated.
Length = 608
Score = 27.6 bits (62), Expect = 7.5
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 183 DVDILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVE 217
D DIL+ G G G G+ KE P++KV VE
Sbjct: 11 DTDILIIGGGMAG--CGAAFEAKEWAPDLKVLIVE 43
>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 = 27.3 bits (61), Expect = 7.8
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 7/63 (11%)
Query: 74 ITPGKSVLIETTGGNTGIGLAFIAALR--GYKLIIVMPSIASMERRIVLRALGAEVYLAD 131
+TPG+ L+ G IGLA IAAL+ G I+ S S ERR + A+GA++ +
Sbjct: 159 LTPGEVALVIGCGP---IGLAVIAALKARGVGPIVA--SDFSPERRALALAMGADIVVDP 213
Query: 132 QAG 134
A
Sbjct: 214 AAD 216
>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 = 27.2 bits (61), Expect = 7.8
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 7/71 (9%)
Query: 74 ITPGKSVLIETTGGNTGIGLAF--IAALRGYKLIIVMPSIASMERRIVLRALGAEVYLAD 131
+ PG++VL+ G +G+G A IA L G +I S +ER + LGA+ +
Sbjct: 164 LRPGETVLV--HGAGSGVGSAAIQIAKLFGATVIATAGSEDKLER---AKELGADYVIDY 218
Query: 132 QAGGFEGILRK 142
+ F +R+
Sbjct: 219 RKEDFVREVRE 229
>gnl|CDD|223779 COG0707, MurG, UDP-N-acetylglucosamine:LPS N-acetylglucosamine
transferase [Cell envelope biogenesis, outer membrane].
Length = 357
Score = 27.3 bits (61), Expect = 7.9
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 85 TGGNTGIGLAFIAAL--RGYKLIIVMPSIASMERRIVLRA 122
TGG+ LA L RG++ +IV+ + +E +V +
Sbjct: 10 TGGHVFPALALAEELAKRGWEQVIVLGTGDGLEAFLVKQY 49
>gnl|CDD|180541 PRK06357, PRK06357, hypothetical protein; Provisional.
Length = 216
Score = 27.0 bits (60), Expect = 8.0
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 185 DILVAGIGTGGTVTGSGRFLKEKNPNIKVYGVEP 218
ILV + TG + G GR +E N + Y P
Sbjct: 62 QILVVDLNTGEVIEGVGRVTREINMHEAAYVANP 95
>gnl|CDD|224304 COG1386, scpB, Chromosome segregation and condensation protein B
[DNA replication, recombination and repair].
Length = 184
Score = 26.9 bits (60), Expect = 8.2
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 64 MIKDAEEKGLI-------TPGKSVLIETT 85
+I E+GLI TPG+ L TT
Sbjct: 123 VISTLLERGLIREVGRRDTPGRPYLYGTT 151
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins
are members of the classical SDR family, with a
canonical active site triad (and also an active site
Asn) and a typical Gly-rich NAD-binding motif. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 235
Score = 27.0 bits (60), Expect = 8.4
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 2/23 (8%)
Query: 77 GKSVLIETTGGNTGIGLAFIAAL 99
K+VL+ TG N GIG AF+ +L
Sbjct: 3 DKTVLV--TGANRGIGKAFVESL 23
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 26.7 bits (60), Expect = 8.8
Identities = 25/61 (40%), Positives = 31/61 (50%), Gaps = 12/61 (19%)
Query: 78 KSVLIETTGGNTGIGLAF---IAALRGYKLIIV-----MPSIASMERRIVLRALGAEVYL 129
+VLI TGG G+GLA +AA L++V P A E L ALGAEV +
Sbjct: 1 GTVLI--TGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAA--ELVAELEALGAEVTV 56
Query: 130 A 130
A
Sbjct: 57 A 57
>gnl|CDD|214444 MTH00165, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 573
Score = 27.4 bits (62), Expect = 9.1
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 234 FFLFFLFFFCFFFSFW 249
FFLFFL FF +
Sbjct: 9 FFLFFLSLILFFLGLY 24
>gnl|CDD|177199 MTH00141, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 259
Score = 27.2 bits (61), Expect = 9.4
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 231 RLLFFLFFLFFFCFFFS-FWPF 251
R F LF + CFFF+ FW +
Sbjct: 78 RWGFILFIVSEVCFFFAFFWAY 99
>gnl|CDD|235625 PRK05852, PRK05852, acyl-CoA synthetase; Validated.
Length = 534
Score = 27.2 bits (60), Expect = 9.4
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 76 PGKSVLIETTGGNTGIGLAFIAALRGYKLIIVM--PSIASMERRIVLRALGAEVYLADQA 133
PG V + G N +A +AA R L++V P++ E+R+ +A GA V L D
Sbjct: 67 PGDRVAL-RMGSNAEFVVALLAASRA-DLVVVPLDPALPIAEQRVRSQAAGARVVLIDAD 124
Query: 134 G 134
G
Sbjct: 125 G 125
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
0.322 0.141 0.423
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,477,417
Number of extensions: 1357319
Number of successful extensions: 3487
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3350
Number of HSP's successfully gapped: 247
Length of query: 251
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 156
Effective length of database: 6,723,972
Effective search space: 1048939632
Effective search space used: 1048939632
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.1 bits)