RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8699
(325 letters)
>gnl|CDD|185502 PTZ00182, PTZ00182, 3-methyl-2-oxobutanate dehydrogenase;
Provisional.
Length = 355
Score = 512 bits (1322), Expect = 0.0
Identities = 177/302 (58%), Positives = 221/302 (73%), Gaps = 5/302 (1%)
Query: 25 VLFGEDVG-FGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFA 83
+ GEDV +GGV++C+ GL +KYG RVF+TP++EQG GF IG A++G IAE FA
Sbjct: 56 FVLGEDVAQYGGVYKCTKGLLDKYGPDRVFDTPITEQGFAGFAIGAAMNGLRPIAEFMFA 115
Query: 84 DYIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGI 143
D+IFPAFDQIVNEAAKYRY SG QF C + IR P AVGHG YHSQS EAYFAH PG+
Sbjct: 116 DFIFPAFDQIVNEAAKYRYMSGGQFDCP-IVIRGPNGAVGHGGAYHSQSFEAYFAHVPGL 174
Query: 144 KVVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRAAVEDVPEDYYELPLDKADILVAGT 203
KVV P P AKGLL + I+D +P +FFEPK+LYR +VE VPE Y LPL KA ++ G
Sbjct: 175 KVVAPSDPEDAKGLLKAAIRDPNPVVFFEPKLLYRESVEVVPEADYTLPLGKAKVVREGK 234
Query: 204 DVTLIGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHE 263
DVT++G+G+QVHV + A ++ G+SCEVIDL S+ PWDRET+ +S +KTGR +I HE
Sbjct: 235 DVTIVGYGSQVHVALKAAEELAKE-GISCEVIDLRSLRPWDRETIVKSVKKTGRCVIVHE 293
Query: 264 APLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFPHI--FEPFYIPDKWRCLEAVKQ 321
AP T G GAE+AA I + CFL LEAPI+RV G DTPFP+ EP Y+PDK + +EA K+
Sbjct: 294 APPTCGIGAEIAAQIMEDCFLYLEAPIKRVCGADTPFPYAKNLEPAYLPDKEKVVEAAKR 353
Query: 322 IT 323
+
Sbjct: 354 VL 355
>gnl|CDD|223101 COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex,
dehydrogenase (E1) component, eukaryotic type, beta
subunit [Energy production and conversion].
Length = 324
Score = 436 bits (1125), Expect = e-155
Identities = 157/304 (51%), Positives = 206/304 (67%), Gaps = 5/304 (1%)
Query: 25 VLFGEDVGF-GGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFA 83
V+ GEDVG GGVFR + GLQEK+G+ RV +TP++E GI G +G A++G I EIQFA
Sbjct: 23 VVLGEDVGVYGGVFRVTKGLQEKFGEERVIDTPIAESGIAGIAVGAALTGLRPIVEIQFA 82
Query: 84 DYIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGI 143
D+I+PAFDQIVN+AAK RYRSG QF+ + IR P G HSQS EA FAH PG+
Sbjct: 83 DFIYPAFDQIVNQAAKIRYRSGGQFTV-PIVIRTPNGGGIGGGAQHSQSLEALFAHIPGL 141
Query: 144 KVVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRAAVEDVPEDYYELPLDKADILVAGT 203
KVV+P PY AKGLL + I+D DP IF E K LYR+ +VPE+ Y +PL KA I+ G+
Sbjct: 142 KVVMPSTPYDAKGLLKAAIRDPDPVIFLEHKRLYRSFKGEVPEEDYTIPLGKAKIVREGS 201
Query: 204 DVTLIGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHE 263
DVT++ +G VH E A +++ G+S EVIDL ++ P D+ET+ S +KTGR++I HE
Sbjct: 202 DVTIVTYGAMVHTALEAAEELEKE-GISAEVIDLRTLSPLDKETIIASVKKTGRLVIVHE 260
Query: 264 APLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFP--HIFEPFYIPDKWRCLEAVKQ 321
AP T G GAE+AA I ++ F L+API RV G DTP P E Y+P+ R + AVK+
Sbjct: 261 APKTGGIGAEIAALIAEEAFDYLDAPILRVAGPDTPVPYSAALEKAYLPNPERIVAAVKK 320
Query: 322 ITRY 325
+ +
Sbjct: 321 VLEF 324
>gnl|CDD|132919 cd07036, TPP_PYR_E1-PDHc-beta_like, Pyrimidine (PYR) binding domain
of the beta subunits of the E1 components of human
pyruvate dehydrogenase complex (E1- PDHc) and related
proteins. Thiamine pyrophosphate (TPP) family,
pyrimidine (PYR) binding domain of the beta subunits of
the E1 components of: human pyruvate dehydrogenase
complex (E1- PDHc), the acetoin dehydrogenase complex
(ADC), and the branched chain alpha-keto acid
dehydrogenase/2-oxoisovalerate dehydrogenase complex
(BCADC), subfamily. The PYR domain is found in many key
metabolic enzymes which use TPP (also known as thiamine
diphosphate) as a cofactor. TPP binds in the cleft
formed by a PYR domain and a PP domain. The PYR domain,
binds the aminopyrimidine ring of TPP, the PP domain
binds the diphosphate residue. A polar interaction
between the conserved glutamate of the PYR domain and
the N1' of the TPP aminopyrimidine ring is shared by
most TPP-dependent enzymes, and participates in the
activation of TPP. The PYR and PP domains have a common
fold, but do not share strong sequence conservation. The
PP domain is not included in this sub-family. E1-PDHc is
an alpha2beta2 dimer-of-heterodimers having two active
sites lying between PYR and PP domains of separate
subunits, the PYR domains are arranged on the beta
subunit, the PP domains on the alpha subunits. PDHc
catalyzes the irreversible oxidative decarboxylation of
pyruvate to produce acetyl-CoA in the bridging step
between glycolysis and the citric acid cycle. ADC
participates in the breakdown of acetoin. BCADC
catalyzes the oxidative decarboxylation of
4-methyl-2-oxopentanoate, 3-methyl-2-oxopentanoate and
3-methyl-2-oxobutanoate during the breakdown of branched
chain amino acids.
Length = 167
Score = 248 bits (636), Expect = 3e-83
Identities = 84/151 (55%), Positives = 102/151 (67%), Gaps = 2/151 (1%)
Query: 25 VLFGEDVG-FGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFA 83
V+ GEDVG +GGVF+ + GL +K+G RV +TP++E GIVG +G A++G I EI FA
Sbjct: 18 VVLGEDVGDYGGVFKVTKGLLDKFGPDRVIDTPIAEAGIVGLAVGAAMNGLRPIVEIMFA 77
Query: 84 DYIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGI 143
D+ PAFDQIVNEAAK RY SG QF + IR P G HSQS EA+FAH PG+
Sbjct: 78 DFALPAFDQIVNEAAKLRYMSGGQFKVP-IVIRGPNGGGIGGGAQHSQSLEAWFAHIPGL 136
Query: 144 KVVIPRGPYKAKGLLLSCIKDKDPCIFFEPK 174
KVV P PY AKGLL + I+D DP IF E K
Sbjct: 137 KVVAPSTPYDAKGLLKAAIRDDDPVIFLEHK 167
>gnl|CDD|169719 PRK09212, PRK09212, pyruvate dehydrogenase subunit beta; Validated.
Length = 327
Score = 250 bits (639), Expect = 2e-81
Identities = 122/304 (40%), Positives = 175/304 (57%), Gaps = 8/304 (2%)
Query: 26 LFGEDVG-FGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFAD 84
L GE+VG + G ++ + GL E++G RV +TP++E G G +G A +G I E +
Sbjct: 26 LMGEEVGEYQGAYKVTQGLLEQFGPKRVIDTPITEHGFAGLAVGAAFAGLRPIVEFMTFN 85
Query: 85 YIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGIK 144
+ A DQIVN AAK Y SG Q C + R P A A HSQ A+++H PG+K
Sbjct: 86 FSMQAIDQIVNSAAKTNYMSGGQLKC-PIVFRGPNGAAARVAAQHSQCYAAWYSHIPGLK 144
Query: 145 VVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRAAVEDVPEDYYELPLDKADILVAGTD 204
VV P KGLL + I+D +P IF E ++LY +VPE+ +P+ KA IL G+D
Sbjct: 145 VVAPYFAADCKGLLKTAIRDPNPVIFLENEILY-GHSHEVPEEEESIPIGKAAILREGSD 203
Query: 205 VTLIGWGTQVHVLREVAG-LAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHE 263
VT++ + QV + E A L KE G+S EVIDL ++ P D ET+ +S +KT R+++ E
Sbjct: 204 VTIVTFSIQVKLALEAAELLEKE--GISVEVIDLRTLRPLDTETIIESVKKTNRLVVVEE 261
Query: 264 APLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFPHI--FEPFYIPDKWRCLEAVKQ 321
+G GAE+AA I + F L+AP+ RVTG D P P+ E +P + +EAVK+
Sbjct: 262 GWPFAGVGAEIAALIMKEAFDYLDAPVERVTGKDVPLPYAANLEKLALPSEEDIIEAVKK 321
Query: 322 ITRY 325
+
Sbjct: 322 VCYR 325
>gnl|CDD|177066 CHL00144, odpB, pyruvate dehydrogenase E1 component beta subunit;
Validated.
Length = 327
Score = 216 bits (553), Expect = 1e-68
Identities = 122/313 (38%), Positives = 176/313 (56%), Gaps = 24/313 (7%)
Query: 25 VLFGEDVG-FGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFA 83
+ GEDVG +GG ++ + GL EKYG RV +TP++E G IG A++G I E
Sbjct: 25 FVIGEDVGHYGGSYKVTKGLHEKYGDLRVLDTPIAENSFTGMAIGAAMTGLRPIVEGMNM 84
Query: 84 DYIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGH--GALYHSQSPEAYFAHTP 141
++ AF+QI N A Y SG F+ + IR P VG GA HSQ E+YF P
Sbjct: 85 GFLLLAFNQISNNAGMLHYTSGGNFTI-PIVIRGPG-GVGRQLGA-EHSQRLESYFQSVP 141
Query: 142 GIKVVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRAAVEDVPEDYYELPLDKADILVA 201
G+++V PY AKGLL S I+ +P IFFE +LY E++P++ Y LPL+KA+++
Sbjct: 142 GLQIVACSTPYNAKGLLKSAIRSNNPVIFFEHVLLYNLK-EEIPDNEYLLPLEKAEVVRP 200
Query: 202 GTDVTLIGWGTQV-HVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVII 260
G D+T++ + HVL+ V L ++ G E+IDL+S+ P D T+ +S +KT +V+I
Sbjct: 201 GNDITILTYSRMRHHVLQAVKVLVEK--GYDPEIIDLISLKPLDLGTISKSVKKTHKVLI 258
Query: 261 AHEAPLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFPH--------IFEPFYIPDK 312
E T G GAEL A I + F L+API R++ D P P+ + +P I
Sbjct: 259 VEECMKTGGIGAELIAQINEHLFDELDAPIVRLSSQDVPTPYNGPLEEATVIQPAQI--- 315
Query: 313 WRCLEAVKQITRY 325
+EAV+QI
Sbjct: 316 ---IEAVEQIITN 325
>gnl|CDD|237011 PRK11892, PRK11892, pyruvate dehydrogenase subunit beta;
Provisional.
Length = 464
Score = 212 bits (541), Expect = 3e-65
Identities = 119/303 (39%), Positives = 172/303 (56%), Gaps = 9/303 (2%)
Query: 26 LFGEDVG-FGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFAD 84
+ GE+V + G ++ + GL +++G RV +TP++E G G G+G A +G I E +
Sbjct: 164 VMGEEVAEYQGAYKVTQGLLQEFGARRVIDTPITEHGFAGIGVGAAFAGLKPIVEFMTFN 223
Query: 85 YIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGIK 144
+ A DQI+N AAK Y SG Q C + R P A A HSQ A+++H PG+K
Sbjct: 224 FAMQAIDQIINSAAKTLYMSGGQMGCP-IVFRGPNGAAARVAAQHSQDYAAWYSHIPGLK 282
Query: 145 VVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRAAVEDVPE-DYYELPLDKADILVAGT 203
VV P AKGLL + I+D +P IF E ++LY + DVP+ D + LP+ KA I G
Sbjct: 283 VVAPYSAADAKGLLKAAIRDPNPVIFLENEILYGQSF-DVPKLDDFVLPIGKARIHREGK 341
Query: 204 DVTLIGWGTQVHV-LREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAH 262
DVT++ + + L+ LAKE G+ EVIDL +I P D ET+ +S +KT R++
Sbjct: 342 DVTIVSFSIGMTYALKAAEELAKE--GIDAEVIDLRTIRPMDTETIVESVKKTNRLVTVE 399
Query: 263 EAPLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFPHI--FEPFYIPDKWRCLEAVK 320
E SG GAE+AA + ++ F L+AP+ RVTG D P P+ E +P +EAVK
Sbjct: 400 EGWPQSGVGAEIAARVMEQAFDYLDAPVLRVTGKDVPMPYAANLEKLALPSVAEVVEAVK 459
Query: 321 QIT 323
+
Sbjct: 460 AVC 462
>gnl|CDD|215368 PLN02683, PLN02683, pyruvate dehydrogenase E1 component subunit
beta.
Length = 356
Score = 208 bits (532), Expect = 3e-65
Identities = 106/282 (37%), Positives = 158/282 (56%), Gaps = 8/282 (2%)
Query: 26 LFGEDVG-FGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFAD 84
+ GE+VG + G ++ + GL +KYG RV +TP++E G G G+G A +G + E +
Sbjct: 49 IMGEEVGEYQGAYKITKGLLQKYGPDRVLDTPITEAGFTGIGVGAAYAGLKPVVEFMTFN 108
Query: 85 YIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGIK 144
+ A D I+N AAK Y S Q S + R P A HSQ A+++ PG+K
Sbjct: 109 FSMQAIDHIINSAAKTNYMSAGQISV-PIVFRGPNGAAAGVGAQHSQCFAAWYSSVPGLK 167
Query: 145 VVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRAAV---EDVPEDYYELPLDKADILVA 201
V+ P A+GLL + I+D DP +F E ++LY + +V + + LP+ KA I
Sbjct: 168 VLAPYSSEDARGLLKAAIRDPDPVVFLENELLYGESFPVSAEVLDSSFVLPIGKAKIERE 227
Query: 202 GTDVTLIGWGTQV-HVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVII 260
G DVT++ + V + L+ LAKE G+S EVI+L SI P DR+T+ S RKT R++
Sbjct: 228 GKDVTIVAFSKMVGYALKAAEILAKE--GISAEVINLRSIRPLDRDTINASVRKTNRLVT 285
Query: 261 AHEAPLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFPH 302
E G GAE+ AS+ ++ F L+AP+ R+ G D P P+
Sbjct: 286 VEEGWPQHGVGAEICASVVEESFDYLDAPVERIAGADVPMPY 327
>gnl|CDD|217227 pfam02780, Transketolase_C, Transketolase, C-terminal domain. The
C-terminal domain of transketolase has been proposed as
a regulatory molecule binding site.
Length = 124
Score = 129 bits (327), Expect = 2e-37
Identities = 50/118 (42%), Positives = 76/118 (64%), Gaps = 3/118 (2%)
Query: 195 KADILVAGTDVTLIGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARK 254
KA+IL G DVT++ +G+ VH E A ++ G+S EVIDL ++ P D +T+ +S +K
Sbjct: 2 KAEILREGDDVTIVAYGSMVHEALEAAEELAKE-GISAEVIDLRTVKPLDEDTILESVKK 60
Query: 255 TGRVIIAHEAPLTSGFGAELAASIQDKCFLSLEAPIRRVTGYDTPFPH--IFEPFYIP 310
TGR+++ EA GFG+E+AA++ ++ F L+AP+ RV G DTP PH E Y+
Sbjct: 61 TGRLVVVEEAVKRGGFGSEVAAALAEEGFDYLDAPVLRVGGPDTPIPHGPALELAYLG 118
>gnl|CDD|217226 pfam02779, Transket_pyr, Transketolase, pyrimidine binding domain.
This family includes transketolase enzymes, pyruvate
dehydrogenases, and branched chain alpha-keto acid
decarboxylases.
Length = 172
Score = 131 bits (331), Expect = 3e-37
Identities = 48/155 (30%), Positives = 67/155 (43%), Gaps = 7/155 (4%)
Query: 25 VLFGEDVGFGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFAD 84
V G DV GG F + GL G RV +T ++EQ +VG G+A+ G E F D
Sbjct: 24 VGGGADVA-GGTFTVTKGLLHPQGDGRVIDTGIAEQAMVGIANGMALHGLLPPVEATFGD 82
Query: 85 YIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGIK 144
+ A D I Y + + + R P G + SQ A+ P +K
Sbjct: 83 FANRADDAIR------HYAALGKLPVPFVVTRDPIGVGEDGPTHQSQEDLAFLRAIPNLK 136
Query: 145 VVIPRGPYKAKGLLLSCIKDKDPCIFFEPKVLYRA 179
VV P + KGLL + I+D P + P+ L R
Sbjct: 137 VVRPSDAAETKGLLRAAIEDDGPVVLRLPRQLLRH 171
>gnl|CDD|214865 smart00861, Transket_pyr, Transketolase, pyrimidine binding domain.
Transketolase (TK) catalyzes the reversible transfer of
a two-carbon ketol unit from xylulose 5-phosphate to an
aldose receptor, such as ribose 5-phosphate, to form
sedoheptulose 7-phosphate and glyceraldehyde 3-
phosphate. This enzyme, together with transaldolase,
provides a link between the glycolytic and
pentose-phosphate pathways. TK requires thiamine
pyrophosphate as a cofactor. In most sources where TK
has been purified, it is a homodimer of approximately 70
Kd subunits. TK sequences from a variety of eukaryotic
and prokaryotic sources show that the enzyme has been
evolutionarily conserved. In the peroxisomes of
methylotrophic yeast Hansenula polymorpha, there is a
highly related enzyme, dihydroxy-acetone synthase (DHAS)
(also known as formaldehyde transketolase), which
exhibits a very unusual specificity by including
formaldehyde amongst its substrates.
Length = 136
Score = 123 bits (311), Expect = 8e-35
Identities = 44/129 (34%), Positives = 58/129 (44%), Gaps = 13/129 (10%)
Query: 53 FNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGNQFSCGN 112
+T ++EQ +VGF GLA+ G + EI F + AK + RS
Sbjct: 18 IDTGIAEQAMVGFAAGLALHGLRPVVEIFFTFFDR----------AKDQIRSAGASGNVP 67
Query: 113 LTIRAPCMAVGH--GALYHSQSPEAYFAHTPGIKVVIPRGPYKAKGLLLSCIKDKDP-CI 169
+ R G +HS EA PG+KVV P P +AKGLL + I+D P I
Sbjct: 68 VVFRHDGGGGVGEDGPTHHSIEDEALLRAIPGLKVVAPSDPAEAKGLLRAAIRDDGPVVI 127
Query: 170 FFEPKVLYR 178
E K LYR
Sbjct: 128 RLERKSLYR 136
>gnl|CDD|226467 COG3958, COG3958, Transketolase, C-terminal subunit [Carbohydrate
transport and metabolism].
Length = 312
Score = 99.7 bits (249), Expect = 4e-24
Identities = 69/255 (27%), Positives = 114/255 (44%), Gaps = 28/255 (10%)
Query: 51 RVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGNQFSC 110
R FN ++EQ +VG GLA++G A A++QI N A +
Sbjct: 50 RFFNVGIAEQDMVGTAAGLALAGKKPFVSTFAAFLSRRAWEQIRNSIA----YNNL---- 101
Query: 111 GNLTIRA--PCMAVGH-GALYHSQSPEAYFAHTPGIKVVIPRGPYKAKGLLLSCIKDKDP 167
N+ I A + G G+ + + A P + V+ P + + +L K P
Sbjct: 102 -NVKIVATHAGVTYGEDGSSHQALEDIAIMRGLPNMTVIAPADAVETRAILDQIADYKGP 160
Query: 168 CIFFEPKVLYRAAVEDVP----EDYYELPLDKADILVAGTDVTLIGWGTQVHVLREVAGL 223
V R VP E Y + KA++L G+D+T+I G V E A +
Sbjct: 161 -------VYMRLGRGKVPVVVDEGGYTFEIGKANVLRDGSDLTIIATGVMVAEALEAAEI 213
Query: 224 AKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLTSGFGAELAASIQDKCF 283
K++ G+S VI++ +I P D + + ++AR+TGR++ A E + G G+ +A + +
Sbjct: 214 LKKE-GISAAVINMFTIKPIDEQAILKAARETGRIVTAEEHSIIGGLGSAVAEVLSENG- 271
Query: 284 LSLEAPIRRVTGYDT 298
P+RR+ DT
Sbjct: 272 ---PTPMRRIGVPDT 283
>gnl|CDD|235470 PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 580
Score = 65.9 bits (162), Expect = 6e-12
Identities = 40/171 (23%), Positives = 71/171 (41%), Gaps = 16/171 (9%)
Query: 135 AYFAHTPGIKVVIPRGPYKAKGLLLSCIK-DKDPCIFFEPKVLYRAAVEDVP-EDYYELP 192
+Y P + ++ P + + +L + + D P P R V + LP
Sbjct: 398 SYLRCIPNMVIMAPSDENELRQMLYTALAYDDGPIAIRYP----RGNGVGVELPELEPLP 453
Query: 193 LDKADILVAGTDVTLIGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSA 252
+ K ++L G DV ++ +GT + + A E+L S V+D + P D E + + A
Sbjct: 454 IGKGEVLREGEDVAILAFGTMLAEALKAA----ERLA-SATVVDARFVKPLDEELLLELA 508
Query: 253 RKTGRVIIAHEAPLTSGFGAELAASIQDKCFLSLEAPIRRVTGY-DTPFPH 302
K V+ E + GFG+ + + D L+ P+ + G D H
Sbjct: 509 AKHDLVVTVEEGAIMGGFGSAVLEFLADH---GLDVPVLNL-GLPDEFIDH 555
>gnl|CDD|224076 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme
metabolism / Lipid metabolism].
Length = 627
Score = 60.3 bits (147), Expect = 4e-10
Identities = 53/254 (20%), Positives = 100/254 (39%), Gaps = 34/254 (13%)
Query: 50 HRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKYRY------- 102
R F+ ++EQ V F GLA G + I ++ ++ A+DQ++++ A
Sbjct: 358 DRFFDVGIAEQHAVTFAAGLAAEGMKPVVAI-YSTFLQRAYDQLIHDVAIQNLPVTFAID 416
Query: 103 RSGNQFSCGNLTIRAPCMAVGH-GALYHSQSPEAYFAHTPGIKVVIPRGPYKAKGLLLSC 161
R+G VG G + ++ P + ++ PR + + +L +
Sbjct: 417 RAG---------------IVGADGPTHQGLFDLSFLRCIPNMVIMAPRDEEELRQMLYTA 461
Query: 162 IK-DKDPCIFFEPKVLYRAAVEDVPEDYYE-LPLDKADILVAGTDVTLIGWGTQVHVLRE 219
+ D P P+ V + E L + K ++L G V ++ +GT + +
Sbjct: 462 LAQDDGPVAIRYPRG---NGVGVILTPELEPLEIGKGELLKEGEKVAILAFGTMLPEALK 518
Query: 220 VAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLTSGFGAELAASIQ 279
VA G+S V+D + P D + + A+ V+ E + GFG+ + +
Sbjct: 519 VAEKLNAY-GISVTVVDPRFVKPLDEALLLELAKSHDLVVTLEENVVDGGFGSAVLEFLA 577
Query: 280 D----KCFLSLEAP 289
L+L P
Sbjct: 578 AHGILVPVLNLGLP 591
>gnl|CDD|183601 PRK12571, PRK12571, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 641
Score = 59.7 bits (145), Expect = 6e-10
Identities = 60/271 (22%), Positives = 107/271 (39%), Gaps = 29/271 (10%)
Query: 41 LGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKY 100
L +K +RVF+ ++EQ V F GLA +G + ++ ++ +DQ++++ A
Sbjct: 352 LDKLQKRFPNRVFDVGIAEQHAVTFAAGLAAAGLKPFCAV-YSTFLQRGYDQLLHDVALQ 410
Query: 101 RY-------RSGNQFSCGNLTIRAPCMAVG-HGALYHSQSPEAYFAHTPGIKVVIPRGPY 152
R+G VG GA + A+ + P + V+ PR
Sbjct: 411 NLPVRFVLDRAG---------------LVGADGATHAGAFDLAFLTNLPNMTVMAPRDEA 455
Query: 153 KAKGLLLSCI-KDKDPCIFFEPKVLYRAAVEDVPEDYYELPLDKADILVAGTDVTLIGWG 211
+ + +L + D P P+ ++P + L + K + G DV ++ G
Sbjct: 456 ELRHMLRTAAAHDDGPIAVRFPR--GEGVGVEIPAEGTILGIGKGRVPREGPDVAILSVG 513
Query: 212 TQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLTSGFG 271
+H + A L + + G+S V D + P D E + + V+I E GFG
Sbjct: 514 AHLHECLDAADLLEAE-GISVTVADPRFVKPLD-EALTDLLVRHHIVVIVEEQGAMGGFG 571
Query: 272 AELAASIQDKCFLSLEAPIRRVTGYDTPFPH 302
A + + D L +R + D H
Sbjct: 572 AHVLHHLADTGLLDGGLKLRTLGLPDRFIDH 602
>gnl|CDD|129308 TIGR00204, dxs, 1-deoxy-D-xylulose-5-phosphate synthase. DXP
synthase is a thiamine diphosphate-dependent enzyme
related to transketolase and the pyruvate dehydrogenase
E1-beta subunit. By an acyloin condensation of pyruvate
with glyceraldehyde 3-phosphate, it produces
1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine
diphosphate (TPP), pyridoxal phosphate, and the
isoprenoid building block isopentenyl diphosphate (IPP)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other, Biosynthesis of cofactors, prosthetic
groups, and carriers, Pyridoxine, Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine].
Length = 617
Score = 56.7 bits (137), Expect = 6e-09
Identities = 61/263 (23%), Positives = 113/263 (42%), Gaps = 18/263 (6%)
Query: 42 GLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKYR 101
K+ R F+ ++EQ V F G+A+ G I ++ ++ A+DQ+V++
Sbjct: 345 KFSRKFPD-RYFDVAIAEQHAVTFAAGMAIEGYKPFVAI-YSTFLQRAYDQVVHDVCI-- 400
Query: 102 YRSGNQFSCGNLTIRAPCMAVG-HGALYHSQSPEAYFAHTPGIKVVIPRGPYKAKGLLLS 160
+ + RA VG G + +Y P + ++ P + + +L +
Sbjct: 401 -QKLPVLFAID---RAGI--VGADGETHQGAFDISYLRCIPNMVIMAPSDENELRQMLYT 454
Query: 161 CIK-DKDPCIFFEPKVLYRAAVEDVPEDYYELPLDKADILVAGTDVTLIGWGTQVHVLRE 219
D P P+ VE PE +LP+ K+++L G + ++G+GT V E
Sbjct: 455 GYHYDDGPIAVRYPRGNA-VGVELTPEPE-KLPIGKSEVLRKGEKILILGFGTLVPEALE 512
Query: 220 VAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLTSGFGAELAASIQ 279
VA E+ G+ V+D + P D E + + A +++ E + G G+ + +
Sbjct: 513 VAESLNEK-GIEATVVDARFVKPLDEELILEIAASHEKLVTVEENAIMGGAGSAVLEFLM 571
Query: 280 DKCFLSLEAPIRRVTGYDTPFPH 302
D+ L P++R+ D PH
Sbjct: 572 DQNKLV---PVKRLGIPDFFIPH 591
>gnl|CDD|178194 PLN02582, PLN02582, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 677
Score = 49.5 bits (118), Expect = 1e-06
Identities = 59/235 (25%), Positives = 96/235 (40%), Gaps = 29/235 (12%)
Query: 51 RVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGNQFSC 110
R F+ ++EQ V F GLA G I ++ ++ +DQ+V++ +
Sbjct: 399 RCFDVGIAEQHAVTFAAGLACEGLKPFCAI-YSSFLQRGYDQVVHDVDLQK--------- 448
Query: 111 GNLTIRAPCMAVGHGALYHSQSPE-------AYFAHTPGIKVVIPRGPYKAKGLLLSCIK 163
L +R A+ L + P Y A P + V+ P + ++ +
Sbjct: 449 --LPVR---FAMDRAGLVGADGPTHCGAFDVTYMACLPNMVVMAPSDEAELFHMVATAAA 503
Query: 164 -DKDPCIFFEPKVLYRAAVEDVPEDYYELPLD--KADILVAGTDVTLIGWGTQVHVLREV 220
D P F P+ +P + +P++ K IL+ G V L+G+GT V
Sbjct: 504 IDDRPSCFRYPR--GNGIGVQLPPNNKGIPIEVGKGRILLEGERVALLGYGTAVQSCLAA 561
Query: 221 AGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLTSGFGAELA 275
A L E+ G+S V D P DR + A K+ V+I E GFG+ +A
Sbjct: 562 ASLL-ERHGLSATVADARFCKPLDRALIRSLA-KSHEVLITVEEGSIGGFGSHVA 614
>gnl|CDD|177870 PLN02225, PLN02225, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 701
Score = 43.6 bits (102), Expect = 1e-04
Identities = 58/243 (23%), Positives = 102/243 (41%), Gaps = 25/243 (10%)
Query: 43 LQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKYRY 102
QE++ R FN ++EQ V F GL+ G I A ++ A+DQ+V++ R
Sbjct: 417 FQERF-PDRFFNVGMAEQHAVTFSAGLSSGGLKPFCIIPSA-FLQRAYDQVVHDVD--RQ 472
Query: 103 RSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGIKVVIPRGPYKAKGLLLSC- 161
R +F I + + G + A+ + P + + P + ++ +
Sbjct: 473 RKAVRF-----VITSAGLVGSDGPVQCGAFDIAFMSSLPNMIAMAPADEDELVNMVATAA 527
Query: 162 -IKDKDPCIFFEPKVLYRAAVEDVPEDYY---ELPLD--KADILVAGTDVTLIGWGTQVH 215
+ D+ C F R ++ V +Y LP++ + +LV G DV L+G+G V
Sbjct: 528 YVTDRPVCFRFP-----RGSI--VNMNYLVPTGLPIEIGRGRVLVEGQDVALLGYGAMVQ 580
Query: 216 VLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLTSGFGAELA 275
L +LG++ V D P D + V + + + +I E GFG+ +A
Sbjct: 581 NCLHAHSLL-SKLGLNVTVADARFCKPLDIKLV-RDLCQNHKFLITVEEGCVGGFGSHVA 638
Query: 276 ASI 278
I
Sbjct: 639 QFI 641
>gnl|CDD|132916 cd07033, TPP_PYR_DXS_TK_like, Pyrimidine (PYR) binding domain of
1-deoxy-D-xylulose-5-phosphate synthase (DXS),
transketolase (TK), and related proteins. Thiamine
pyrophosphate (TPP) family, pyrimidine (PYR) binding
domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS),
transketolase (TK), and the beta subunits of the E1
component of the human pyruvate dehydrogenase complex
(E1- PDHc), subfamily. The PYR domain is found in many
key metabolic enzymes which use TPP (also known as
thiamine diphosphate) as a cofactor. TPP binds in the
cleft formed by a PYR domain and a PP domain. The PYR
domain, binds the aminopyrimidine ring of TPP, the PP
domain binds the diphosphate residue. A polar
interaction between the conserved glutamate of the PYR
domain and the N1' of the TPP aminopyrimidine ring is
shared by most TPP-dependent enzymes, and participates
in the activation of TPP. The PYR and PP domains have a
common fold, but do not share strong sequence
conservation. The PP domain is not included in this
sub-family. Like many TPP-dependent enzymes DXS and TK
are homodimers having a PYR and a PP domain on the same
subunit. TK has two active sites per dimer which lie
between PYR and PP domains of different subunits. For
DXS each active site is located at the interface of a
PYR and a PP domain from the same subunit. E1-PDHc is an
alpha2beta2 dimer-of-heterodimers having two active
sites but having the PYR and PP domains arranged on
separate subunits, the PYR domains on the beta subunits,
the PP domains on the alpha subunits. DXS is a
regulatory enzyme of the mevalonate-independent pathway
involved in terpenoid biosynthesis, it catalyzes a
transketolase-type condensation of pyruvate with
D-glyceraldehyde-3-phosphate to form
1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide.
TK catalyzes the transfer of a two-carbon unit from
ketose phosphates to aldose phosphates. In heterotrophic
organisms, TK provides a link between glycolysis and the
pentose phosphate pathway and provides precursors for
nucleotide, aromatic amino acid and vitamin
biosynthesis. TK also plays a central role in the Calvin
cycle in plants. PDHc catalyzes the irreversible
oxidative decarboxylation of pyruvate to produce
acetyl-CoA in the bridging step between glycolysis and
the citric acid cycle. This subfamily includes the beta
subunits of the E1 component of the acetoin
dehydrogenase complex (ADC) and the branched chain
alpha-keto acid dehydrogenase/2-oxoisovalerate
dehydrogenase complex (BCADC). ADC participates in the
breakdown of acetoin. BCADC catalyzes the oxidative
decarboxylation of 4-methyl-2-oxopentanoate,
3-methyl-2-oxopentanoate and 3-methyl-2-oxobutanoate
during the breakdown of branched chain amino acids.
Length = 156
Score = 40.5 bits (96), Expect = 3e-04
Identities = 30/139 (21%), Positives = 46/139 (33%), Gaps = 32/139 (23%)
Query: 44 QEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQ--FADYIFPAFDQIVNEAAKYR 101
+K+ R + ++EQ +VG GLA+ G F A+DQI ++ A
Sbjct: 34 AKKFPD-RFIDVGIAEQNMVGIAAGLALHGLKPFVSTFSFFLQR---AYDQIRHDVA--- 86
Query: 102 YRSGNQFSCGNLTIRAPCMAVGHGALY--------HSQSPE--AYFAHTPGIKVVIPRGP 151
L P VG A H Q E A P + V+ P
Sbjct: 87 -----------LQ-NLPVKFVGTHAGISVGEDGPTH-QGIEDIALLRAIPNMTVLRPADA 133
Query: 152 YKAKGLLLSCIKDKDPCIF 170
+ L + ++ P
Sbjct: 134 NETAAALEAALEYDGPVYI 152
>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 641
Score = 41.2 bits (96), Expect = 6e-04
Identities = 58/247 (23%), Positives = 96/247 (38%), Gaps = 35/247 (14%)
Query: 41 LGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFDQIVNEAAKY 100
L L E R F+ ++EQ V F GLA G I ++ ++ A+DQ+V++
Sbjct: 390 LNLFESRFPTRCFDVGIAEQHAVTFAAGLACEGLKPFCTI-YSSFMQRAYDQVVHDV--- 445
Query: 101 RYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPE-------AYFAHTPGIKVVIPRGPYK 153
L +R A+ L + P + A P + V+ P +
Sbjct: 446 --------DLQKLPVR---FAIDRAGLMGADGPTHCGAFDVTFMACLPNMIVMAPSDEAE 494
Query: 154 AKGLLLS--CIKDKDPCIFFEP----KVLYRAAVEDVPEDYYELPLDKADILVAGTDVTL 207
++ + I D+ C + V + VP L + + IL G V L
Sbjct: 495 LFNMVATAAAIDDRPSCFRYHRGNGIGVSLPPGNKGVP-----LQIGRGRILRDGERVAL 549
Query: 208 IGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIAHEAPLT 267
+G+G+ V E A + E+ G+ V D P D + +S K+ V+I E
Sbjct: 550 LGYGSAVQRCLEAASMLSER-GLKITVADARFCKPLD-VALIRSLAKSHEVLITVEEGSI 607
Query: 268 SGFGAEL 274
GFG+ +
Sbjct: 608 GGFGSHV 614
>gnl|CDD|237053 PRK12315, PRK12315, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 581
Score = 39.2 bits (92), Expect = 0.002
Identities = 55/254 (21%), Positives = 96/254 (37%), Gaps = 40/254 (15%)
Query: 35 GVFRCSLGLQE---KYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAFD 91
GVF GL+E KY + + ++EQ V F G+A +GA + + ++ A+D
Sbjct: 307 GVF----GLKEFRKKYPD-QYVDVGIAEQESVAFASGIAANGARPVI-FVNSTFLQRAYD 360
Query: 92 QIVNEAAKYRYRSGNQFSCGNLTIRAPC-MAVGHGALYHSQSPE------AYFAHTPGIK 144
Q+ + N P M V G++ + ++ P +
Sbjct: 361 QL------------SHDLAIN---NNPAVMIVFGGSISGNDVTHLGIFDIPMISNIPNLV 405
Query: 145 VVIPRGPYKAKGLLLSCIKDKD-PCIFFEP--KVLYRAAVEDVPEDYYELPLDKADILVA 201
+ P + +L + + P P V V DY L K ++ A
Sbjct: 406 YLAPTTKEELIAMLEWALTQHEHPVAIRVPEHGVESG---PTVDTDYSTL---KYEVTKA 459
Query: 202 GTDVTLIGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQSARKTGRVIIA 261
G V ++ G + +VA KE+LG+ +I+ I D E + + V+
Sbjct: 460 GEKVAILALGDFYELGEKVAKKLKEELGIDATLINPKFITGLDEELLEKLKEDHELVVTL 519
Query: 262 HEAPLTSGFGAELA 275
+ L GFG ++A
Sbjct: 520 EDGILDGGFGEKIA 533
>gnl|CDD|223641 COG0567, SucA, 2-oxoglutarate dehydrogenase complex, dehydrogenase
(E1) component, and related enzymes [Energy production
and conversion].
Length = 906
Score = 38.4 bits (90), Expect = 0.004
Identities = 46/162 (28%), Positives = 64/162 (39%), Gaps = 41/162 (25%)
Query: 48 GKHRVFNTPLSEQGIVGFGIGLAVSGATA--IAEIQFADYIFPA---FDQ-IVNEAAKYR 101
GK V N+PLSE+ ++GF G +++ + E QF D+ A DQ I + K+
Sbjct: 625 GKFEVINSPLSEEAVLGFEYGYSLANPKTLVLWEAQFGDFANGAQVVIDQFISSGEQKWG 684
Query: 102 YRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPG-------------IKVVIP 148
SG L + P HG Y Q PE H+ ++VV+P
Sbjct: 685 RMSG-------LVMLLP-----HG--YEGQGPE----HSSARLERFLQLCAENNMQVVVP 726
Query: 149 RGPYKAKGLLLSCIKDKD--PCIFFEPKVLYR--AAVEDVPE 186
P + LL P I PK L R AV + E
Sbjct: 727 STPAQYFHLLRRQALRDFRKPLIVMTPKSLLRHKLAVSSLEE 768
>gnl|CDD|161785 TIGR00239, 2oxo_dh_E1, 2-oxoglutarate dehydrogenase, E1 component.
The 2-oxoglutarate dehydrogenase complex consists of
this thiamine pyrophosphate-binding subunit (E1),
dihydrolipoamide succinyltransferase (E2), and lipoamide
dehydrogenase (E3). The E1 ortholog from Corynebacterium
glutamicum is unusual in having an N-terminal extension
that resembles the dihydrolipoamide succinyltransferase
(E2) component of 2-oxoglutarate dehydrogenase [Energy
metabolism, TCA cycle].
Length = 929
Score = 36.8 bits (85), Expect = 0.014
Identities = 41/157 (26%), Positives = 61/157 (38%), Gaps = 39/157 (24%)
Query: 43 LQEKYGKHRVFNTPLSEQGIVGFGIGLAVSG--ATAIAEIQFADYIFPA---FDQIVNEA 97
L G RV+N+ LSE+ ++GF G A + I E QF D+ A DQ ++
Sbjct: 640 LHNGQGAFRVWNSVLSEESVLGFEYGYATTSPRTLVIWEAQFGDFANGAQVVIDQFISSG 699
Query: 98 -AKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPG-------------I 143
K+ SG M + HG Y Q PE H+ G +
Sbjct: 700 EQKWGQMSG------------LVMLLPHG--YEGQGPE----HSSGRLERFLQLAAEQNM 741
Query: 144 KVVIPRGPYKAKGLL--LSCIKDKDPCIFFEPKVLYR 178
+V +P P + +L + + P + PK L R
Sbjct: 742 QVCVPTTPAQVFHILRRQALRGMRRPLVVMSPKSLLR 778
>gnl|CDD|132915 cd06586, TPP_enzyme_PYR, Pyrimidine (PYR) binding domain of
thiamine pyrophosphate (TPP)-dependent enzymes.
Thiamine pyrophosphate (TPP) family, pyrimidine (PYR)
binding domain; found in many key metabolic enzymes
which use TPP (also known as thiamine diphosphate) as a
cofactor. TPP binds in the cleft formed by a PYR domain
and a PP domain. The PYR domain, binds the
aminopyrimidine ring of TPP, the PP domain binds the
diphosphate residue. A polar interaction between the
conserved glutamate of the PYR domain and the N1' of the
TPP aminopyrimidine ring is shared by most TPP-dependent
enzymes, and participates in the activation of TPP. The
PYR and PP domains have a common fold, but do not share
strong sequence conservation. The PP domain is not
included in this group. Most TPP-dependent enzymes have
the PYR and PP domains on the same subunit although
these domains can be alternatively arranged in the
primary structure. In the case of 2-oxoisovalerate
dehydrogenase (2OXO), sulfopyruvate decarboxylase
(ComDE), and the E1 component of human pyruvate
dehydrogenase complex (E1- PDHc) the PYR and PP domains
appear on different subunits. TPP-dependent enzymes are
multisubunit proteins, the smallest catalytic unit being
a dimer-of-active sites. For many of these enzymes the
active sites lie between PP and PYR domains on different
subunits. However, for the homodimeric enzymes
1-deoxy-D-xylulose 5-phosphate synthase (DXS) and
Desulfovibrio africanus pyruvate:ferredoxin
oxidoreductase (PFOR), each active site lies at the
interface of the PYR and PP domains from the same
subunit.
Length = 154
Score = 33.1 bits (76), Expect = 0.083
Identities = 21/125 (16%), Positives = 40/125 (32%), Gaps = 12/125 (9%)
Query: 25 VLFGEDVGFGGVFRCSLGLQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIAEIQFAD 84
+FG SL + G R+ +T + E G G G A +G + +
Sbjct: 14 HVFGYPGDEIS----SLLDALREGDKRIIDTVIHELGAAGAAAGYARAGGPPVVIVTSGT 69
Query: 85 YIFPAFDQIVNEAAKYRYRSGNQFSCGNLTIRAPCMAVGHGALYHSQSPEAYFAHTPGIK 144
+ A + + + AA++ I A ++ + S + P
Sbjct: 70 GLLNAINGLADAAAEH--------LPVVFLIGARGISAQAKQTFQSMFDLGMYRSIPEAN 121
Query: 145 VVIPR 149
+ P
Sbjct: 122 ISSPS 126
>gnl|CDD|235639 PRK05899, PRK05899, transketolase; Reviewed.
Length = 586
Score = 31.3 bits (72), Expect = 0.69
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 10/73 (13%)
Query: 198 ILVAGTDVTLIGWGTQVHVLREVAGLAKEQLGVSCEVIDLVSILPWD------RETVFQS 251
+L DV LI G++VH+ E A + + G+ V+ + S +D +E+V +
Sbjct: 468 VLRDDPDVILIATGSEVHLALEAADELEAE-GIKVRVVSMPSTELFDEQDAAYKESVLPA 526
Query: 252 ARKTGRVIIAHEA 264
A +A EA
Sbjct: 527 A---VTARVAVEA 536
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 31.0 bits (71), Expect = 1.0
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 6/69 (8%)
Query: 43 LQEKYGKHRVFNTPLSEQGIVGFGIGLAVSGATAIA--EIQFADYIFPA---FDQIVNEA 97
L + GK V+++ LSE +GF G +V A+ E QF D+ A D+ ++
Sbjct: 941 LSDDQGKFLVYDSLLSEYAAMGFEYGYSVERPDALVLWEAQFGDFANGAQTIIDEFISSG 1000
Query: 98 -AKYRYRSG 105
AK+ RSG
Sbjct: 1001 EAKWGQRSG 1009
>gnl|CDD|239738 cd03769, SR_IS607_transposase_like, Serine Recombinase (SR) family,
IS607-like transposase subfamily, catalytic domain;
members contain a DNA binding domain with homology to
MerR/SoxR located N-terminal to the catalytic domain.
Serine recombinases catalyze site-specific recombination
of DNA molecules by a concerted, four-strand cleavage
and rejoining mechanism which involves a transient
phosphoserine linkage between DNA and the enzyme. They
are functionally versatile and include resolvases,
invertases, integrases, and transposases. This subfamily
is composed of proteins that catalyze the transposition
of insertion sequence (IS) elements such as IS607 from
Helicobacter and IS1535 from Mycobacterium, and similar
proteins from other bacteria and several archaeal
species. IS elements are DNA segments that move to new
sites in prokaryotic and eukaryotic genomes causing
insertion mutations and gene rearrangements.
Length = 134
Score = 29.2 bits (66), Expect = 1.3
Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 9/67 (13%)
Query: 213 QVHVLREVAGLAKEQLGVSCEVIDLVSILPWDRETVFQ-----SARKTGRVIIAHEAPLT 267
Q+ L A Q + + D+ S L R+ + + A K RV+I ++ L
Sbjct: 19 QIERLEA---YATAQGWIVEVIKDIGSGLNEKRKGLLKLLEDVLAGKVERVVITYKDRLA 75
Query: 268 SGFGAEL 274
FG EL
Sbjct: 76 R-FGFEL 81
>gnl|CDD|233716 TIGR02087, LEUD_arch, 3-isopropylmalate dehydratase, small subunit.
This subfamily is most closely related to the
3-isopropylmalate dehydratase, small subunits which form
TIGR00171. This subfamily includes the members of
TIGR02084 which are gene clustered with other genes of
leucine biosynthesis. The rest of the subfamily includes
mainly archaeal species which exhibit two hits to this
model. In these cases it is possible that one or the
other of the hits does not have a 3-isopropylmalate
dehydratase activity but rather one of the other related
aconitase-like activities.
Length = 154
Score = 28.9 bits (65), Expect = 2.2
Identities = 16/64 (25%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 171 FEPKVLYRAAVEDVPEDYYELPLDKADILVAGTDVTLIGWGTQVHVLREVAGLAKEQLGV 230
+P L A+E + ++ + + D++VAG + G G+ RE A LA + G+
Sbjct: 24 TDPDELASHAMEGIDPEFAK-KVRPGDVIVAGKN---FGCGSS----REQAALALKAAGI 75
Query: 231 SCEV 234
+ +
Sbjct: 76 AAVI 79
>gnl|CDD|235844 PRK06638, PRK06638, NADH:ubiquinone oxidoreductase subunit J;
Provisional.
Length = 198
Score = 28.3 bits (64), Expect = 4.6
Identities = 9/37 (24%), Positives = 15/37 (40%)
Query: 52 VFNTPLSEQGIVGFGIGLAVSGATAIAEIQFADYIFP 88
+ ++ G+ GI AI + F DY+ P
Sbjct: 110 IVGAIIAASGVNAQGIAAGEGNTKAIGILLFTDYLLP 146
>gnl|CDD|221583 pfam12449, DUF3684, Protein of unknown function (DUF3684). This
domain family is found in eukaryotes, and is typically
between 1072 and 1090 amino acids in length.
Length = 1084
Score = 28.8 bits (65), Expect = 5.2
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 248 VFQS--ARKTGRVIIAHEAPLTSGFGAELAA 276
+F K+GRV I T+G A ++A
Sbjct: 192 IFSGVLPSKSGRVFIGFPTHQTTGLNAHISA 222
>gnl|CDD|173861 cd08496, PBP2_NikA_DppA_OppA_like_9, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA can bind peptides of a wide range of lengths (2-35
amino-acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 454
Score = 28.5 bits (64), Expect = 5.7
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 123 GHGALYHSQSPEAYFAHTPGIKVVIPRGPYKAKGLL 158
G G P +A+ P ++ P P KAK LL
Sbjct: 272 GLGEPASQPFPPGSWAYDPSLENTYPYDPEKAKELL 307
>gnl|CDD|217366 pfam03098, An_peroxidase, Animal haem peroxidase.
Length = 521
Score = 28.4 bits (64), Expect = 6.1
Identities = 8/20 (40%), Positives = 11/20 (55%), Gaps = 3/20 (15%)
Query: 243 WDRETVFQSARKTGRVIIAH 262
W E +FQ AR ++IA
Sbjct: 241 WSDEKLFQEAR---LIVIAQ 257
>gnl|CDD|184261 PRK13705, PRK13705, plasmid-partitioning protein SopA; Provisional.
Length = 388
Score = 28.0 bits (62), Expect = 7.9
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 172 EPKVLYRAAVEDVPEDYYELPLDKADILVAGT 203
+P ++ R A+E V DY + +D A L GT
Sbjct: 219 DPHLMLRLAIETVAHDYDVIVIDSAPNLGIGT 250
>gnl|CDD|190033 pfam01554, MatE, MatE. The MatE domain.
Length = 161
Score = 27.1 bits (61), Expect = 8.7
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 57 LSEQGIVGFGIGLAVSGATAIAEIQFADYIFPAF---DQIVNEAAKY 100
G + L +S A+ I F + I F ++++ A+KY
Sbjct: 68 AGVALRQGLILSLLISLPIALLIILFREPILSLFTQDEEVLELASKY 114
>gnl|CDD|173765 cd08225, STKc_Nek5, Catalytic domain of the Protein
Serine/Threonine Kinase, Never In Mitosis gene A-related
kinase 5. Serine/Threonine Kinases (STKs), Never In
Mitosis gene A (NIMA)-related kinase 5 (Nek5) subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Nek5 subfamily is
one of a family of 11 different Neks (Nek1-11). The Nek
family is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. Neks are involved in the regulation of
downstream processes following the activation of Cdc2,
and many of their functions are cell cycle-related. They
play critical roles in microtubule dynamics during
ciliogenesis and mitosis. The specific function of Nek5
is unknown.
Length = 257
Score = 27.6 bits (61), Expect = 9.2
Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 10/73 (13%)
Query: 17 QLLSSQGGVLFGEDVGFGGVFRCSLGLQEKYGK---HRVF---NTPLSEQGIVG----FG 66
+ ++ Q GVLF ED + SLGL+ + + HR N LS+ G+V FG
Sbjct: 88 KRINRQRGVLFSEDQILSWFVQISLGLKHIHDRKILHRDIKSQNIFLSKNGMVAKLGDFG 147
Query: 67 IGLAVSGATAIAE 79
I ++ + +A
Sbjct: 148 IARQLNDSMELAY 160
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
0.323 0.141 0.438
Gapped
Lambda K H
0.267 0.0843 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,071,717
Number of extensions: 1675100
Number of successful extensions: 1439
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1402
Number of HSP's successfully gapped: 49
Length of query: 325
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 228
Effective length of database: 6,635,264
Effective search space: 1512840192
Effective search space used: 1512840192
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: 59 (26.3 bits)