RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780434|ref|YP_003064847.1| dihydroorotate dehydrogenase 2
[Candidatus Liberibacter asiaticus str. psy62]
(362 letters)
>gnl|CDD|73400 cd04738, DHOD_2_like, Dihydroorotate dehydrogenase (DHOD) class 2.
DHOD catalyzes the oxidation of (S)-dihydroorotate to
orotate. This is the fourth step and the only redox
reaction in the de novo biosynthesis of UMP, the
precursor of all pyrimidine nucleotides. DHOD requires
FMN as co-factor. DHOD divides into class 1 and class 2
based on their amino acid sequences, their cellular
location and their natural electron acceptor used to
reoxidize the flavin group. Members of class 1 are
cytosolic enzymes and multimers, while class 2 enzymes
are membrane associated, monomeric and use respiratory
quinones as their physiological electron acceptors..
Length = 327
Score = 412 bits (1061), Expect = e-116
Identities = 174/328 (53%), Positives = 223/328 (67%), Gaps = 10/328 (3%)
Query: 13 LTHLDPEIAHHLSIVALKSGLLSFFP---VHSDPRLNTKVAGISLSNPLGMAAGYDKNAE 69
L LDPE AH L+I ALK GL V+ DPRL +V G++ NP+G+AAG+DKNAE
Sbjct: 4 LFLLDPETAHRLAIRALKLGLGPPLLLLLVYDDPRLEVEVFGLTFPNPVGLAAGFDKNAE 63
Query: 70 VPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFRLTKDRAIINKLGFNNAGYHTVFSRLSK 129
LL LGFGFVE+GTVTP PQ GNP+PR+FRL +D A+IN++GFNN G V RL K
Sbjct: 64 AIDALLALGFGFVEVGTVTPRPQPGNPKPRLFRLPEDEALINRMGFNNDGADAVAKRLKK 123
Query: 130 IQP-TSPIGINLGANKDSK--DFILDYVSGIRLFFTIASYFTINISSPNTPGLRSLQKKK 186
+P P+G+N+G NKD+ D + DYV G+R A Y +N+SSPNTPGLR LQ K+
Sbjct: 124 RRPRGGPLGVNIGKNKDTPLEDAVEDYVIGVRKLGPYADYLVVNVSSPNTPGLRDLQGKE 183
Query: 187 NLERLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAVEVLSHKVEGIIVSNTT 246
L LL V EE+ K GK VP+ +KI+PDLS+EEL+DIA L H V+GII +NTT
Sbjct: 184 ALRELLTAVK----EERNKLGKKVPLLVKIAPDLSDEELEDIADVALEHGVDGIIATNTT 239
Query: 247 LSRKGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKI 306
+SR G+ S + GGLSG+PL +ST L ++ + G KI IIG GGISS +DA +KI
Sbjct: 240 ISRPGLLRSPLANETGGLSGAPLKERSTEVLRELYKLTGGKIPIIGVGGISSGEDAYEKI 299
Query: 307 MAGANLIQLYSAMIYEGISLPKRIIQGL 334
AGA+L+QLY+ ++YEG L KRI + L
Sbjct: 300 RAGASLVQLYTGLVYEGPGLVKRIKREL 327
>gnl|CDD|36649 KOG1436, KOG1436, KOG1436, Dihydroorotate dehydrogenase [Nucleotide
transport and metabolism].
Length = 398
Score = 323 bits (828), Expect = 6e-89
Identities = 169/344 (49%), Positives = 225/344 (65%), Gaps = 9/344 (2%)
Query: 16 LDPEIAHHLSIVALKSGLLSFFPVHSDPRLNTKVAGISLSNPLGMAAGYDKNAEVPIELL 75
LDPE +H L+++A GLL V D L TKV G SNP+G+AAG+DKNAE L
Sbjct: 55 LDPEFSHRLAVLAASWGLLPRDRVADDASLETKVLGRKFSNPIGLAAGFDKNAEAIDGLA 114
Query: 76 KLGFGFVEIGTVTPHPQAGNPRPRVFRLTKDRAIINKLGFNNAGYHTVFSRLSKI----- 130
GFGF+EIG+VTP PQ GNP+PRVFRL +D A+IN+ GFN+ G V RL
Sbjct: 115 NSGFGFIEIGSVTPKPQEGNPKPRVFRLPEDLAVINRYGFNSEGIDAVLQRLRAKRQAKY 174
Query: 131 -QPTSPIGINLGANKDSKDFILDYVSGIRLFFTIASYFTINISSPNTPGLRSLQKKKNLE 189
+ + +G+NLG NK S+D ILDYV G+R+F A Y IN+SSPNTPGLRSLQKK +L
Sbjct: 175 PEAPAKLGVNLGKNKTSEDAILDYVEGVRVFGPFADYLVINVSSPNTPGLRSLQKKSDLR 234
Query: 190 RLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSR 249
+LL V+Q R +K+ GK P+ +KI+PDLSE+EL DIA+ V ++G+IVSNTT+SR
Sbjct: 235 KLLTKVVQAR--DKLPLGKKPPVLVKIAPDLSEKELKDIALVVKKLNIDGLIVSNTTVSR 292
Query: 250 -KGVQCSDNHEQDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMA 308
K + E+ GGLSG PL ST + + KI IIG GG+SS KDA +KI A
Sbjct: 293 PKASLVNKLKEETGGLSGPPLKPISTNTVRAMYTLTRGKIPIIGCGGVSSGKDAYEKIRA 352
Query: 309 GANLIQLYSAMIYEGISLPKRIIQGLSDFLNKENEVNFENIRGS 352
GA+L+QLY+A++YEG ++ ++I + LS L + + ++ G
Sbjct: 353 GASLVQLYTALVYEGPAIIEKIKRELSALLKAKGFTSVDDAIGK 396
>gnl|CDD|30516 COG0167, PyrD, Dihydroorotate dehydrogenase [Nucleotide transport
and metabolism].
Length = 310
Score = 279 bits (714), Expect = 1e-75
Identities = 121/318 (38%), Positives = 182/318 (57%), Gaps = 21/318 (6%)
Query: 44 RLNTKVAGISLSNPLGMAAGYD-KNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFR 102
L+T++ G+ NPLG+AAG+D KN E L LGFG + TVTP PQ GNP+PR+FR
Sbjct: 1 DLSTEILGLKFPNPLGLAAGFDGKNGEELDALAALGFGAIVTKTVTPEPQEGNPKPRLFR 60
Query: 103 LTKDRAIINKLGFNNAGYHTVFSRLSKIQPT-SPIGINLGANKD--SKDFILDYVSGIRL 159
L +D +IN++GFNN G L + PIG+N+G NK S++ DY +
Sbjct: 61 LPEDEGLINRMGFNNPGADAFLEELKLAKYEGKPIGVNIGKNKGGPSEEAWADYARLLEE 120
Query: 160 FFTIASYFTINISSPNTPGLRSLQKKKN-LERLLIHVMQTREEEKIKTGKFVPIFLKISP 218
A +NIS PNTPG R+L + LE+LL E +K VP+F+K++P
Sbjct: 121 AGD-ADAIELNISCPNTPGGRALGQDPELLEKLL---------EAVKAATKVPVFVKLAP 170
Query: 219 DLSEEELDDIAVEVLSHKVEGIIVSNTTLSR----KGVQCSDNHEQDGGLSGSPLFLKST 274
+ ++D+IA +G+I NTT S + + GGLSG PL +
Sbjct: 171 N--ITDIDEIAKAAEEAGADGLIAINTTKSGMKIDLETKKPVLANETGGLSGPPLKPIAL 228
Query: 275 IALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQGL 334
+A++ +R+G I IIG GGI + +DAL+ I+AGA+ +Q+ +A+IY+G + K II+GL
Sbjct: 229 RVVAELYKRLGGDIPIIGVGGIETGEDALEFILAGASAVQVGTALIYKGPGIVKEIIKGL 288
Query: 335 SDFLNKENEVNFENIRGS 352
+ +L ++ + ++I GS
Sbjct: 289 ARWLEEKGFESIQDIIGS 306
>gnl|CDD|144683 pfam01180, DHO_dh, Dihydroorotate dehydrogenase.
Length = 290
Score = 251 bits (643), Expect = 2e-67
Identities = 116/306 (37%), Positives = 170/306 (55%), Gaps = 27/306 (8%)
Query: 44 RLNTKVAGISLSNPLGMAAGYDKNAEVPIELLKLG-FGFVEIGTVTPHPQAGNPRPRVFR 102
L K+ G+ NP+G+A+G+DK E ++ L LG FG +EI +VTP PQ GNP PRVFR
Sbjct: 1 MLAVKIPGLKFKNPIGLASGFDKFGEEALKWLALGKFGAIEIKSVTPEPQPGNPTPRVFR 60
Query: 103 LTKDRAIINKLGFNNAGYHTVFSRLSKIQP--TSPIGINLGANKDSKDFILDYVSGIRLF 160
L + ++N +G NN G V L K + P+GI L + + DYV R
Sbjct: 61 LPEG--VLNAMGLNNPGLDAVLEELLKRRKEYPRPLGIILSKAGSTVE---DYVEVARKI 115
Query: 161 FTIASYFTINISSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPDL 220
A Y +N+S PNTPGLR+LQ L +L+ V++ + VP+ +K++PDL
Sbjct: 116 GPFADYLELNVSCPNTPGLRALQTDPELAAILLKVVKEVSK--------VPVLVKLAPDL 167
Query: 221 SEEELDDIAVEVLS-HKVEGIIVSNTTLSR--KGVQCSDNHEQD--GGLSGSPLFLKSTI 275
++ + DIA + GI +NTT+ ++ + GGLSG + I
Sbjct: 168 TDIVIIDIADVAAGEDGLTGINATNTTVRGMRIDLKTESPILANGTGGLSGPAI---KPI 224
Query: 276 ALAKIR---QRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQ 332
AL IR QRVGP+I IIG GGI + +DAL+KI+AGA+ +Q+ +A+I+ G + +II
Sbjct: 225 ALKVIRELYQRVGPEIPIIGVGGIFTGEDALEKILAGASAVQIGTALIFGGPFIFPKIID 284
Query: 333 GLSDFL 338
L + L
Sbjct: 285 ELPELL 290
>gnl|CDD|73372 cd02810, DHOD_DHPD_FMN, Dihydroorotate dehydrogenase (DHOD) and
Dihydropyrimidine dehydrogenase (DHPD) FMN-binding
domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
DHPD catalyzes the first step in pyrimidine degradation:
the NADPH-dependent reduction of uracil and thymine to
the corresponding 5,6-dihydropyrimidines. DHPD contains
two FAD, two FMN and eight [4Fe-4S] clusters, arranged
in two electron transfer chains that pass its
homodimeric interface twice. Two of the Fe-S clusters
show a hitherto unobserved coordination involving a
glutamine residue..
Length = 289
Score = 165 bits (420), Expect = 1e-41
Identities = 86/302 (28%), Positives = 140/302 (46%), Gaps = 28/302 (9%)
Query: 47 TKVAGISLSNPLGMAAGYDKNAEVPIELL-KLGFGFVEIGTVTPHPQAGNPRPRVFRLTK 105
G+ L NP G+AAG I GFG V TVT HP+ GNP PRV RL
Sbjct: 1 VNFLGLKLKNPFGVAAGPLLKTGELIARAAAAGFGAVVYKTVTLHPRPGNPLPRVARLPP 60
Query: 106 DR-------AIINKLGFNNAGYHTVFSRLSKIQ---PTSPIGINLGANKDSKDFILDYVS 155
+ I+N G N G ++K + P P+ ++G + SK+ ++
Sbjct: 61 EGESYPEQLGILNSFGLPNLGLDVWLQDIAKAKKEFPGQPLIASVGGS--SKEDYVELAR 118
Query: 156 GIRLFFTIASYFTINISSPNTPGLRSL-QKKKNLERLLIHVMQTREEEKIKTGKFVPIFL 214
I A +N+S PN G R L Q + + LL + +K +P+ +
Sbjct: 119 KIERAG--AKALELNLSCPNVGGGRQLGQDPEAVANLL---------KAVKAAVDIPLLV 167
Query: 215 KISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQCSD---NHEQDGGLSGSPLFL 271
K+SP E++ ++A +G+ NT R + GGLSG+P+
Sbjct: 168 KLSPYFDLEDIVELAKAAERAGADGLTAINTISGRVVDLKTVGPGPKRGTGGLSGAPIRP 227
Query: 272 KSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRII 331
+ +A++ R+ I IIG GGI S +D L+ +MAGA+ +Q+ +A++++G + ++I
Sbjct: 228 LALRWVARLAARLQLDIPIIGVGGIDSGEDVLEMLMAGASAVQVATALMWDGPDVIRKIK 287
Query: 332 QG 333
+
Sbjct: 288 KE 289
>gnl|CDD|73402 cd04740, DHOD_1B_like, Dihydroorotate dehydrogenase (DHOD) class 1B
FMN-binding domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively..
Length = 296
Score = 109 bits (273), Expect = 1e-24
Identities = 78/320 (24%), Positives = 144/320 (45%), Gaps = 40/320 (12%)
Query: 47 TKVAGISLSNPLGMAAG-YDKNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFRLTK 105
++AG+ L NP+ +A+G + E+ G + ++T P+ GNP PRV
Sbjct: 2 VELAGLRLKNPVILASGTFGFGEELSRVADLGKLGAIVTKSITLEPREGNPPPRVVETP- 60
Query: 106 DRAIINKLGFNNAGYHTVFSRLS--KIQPTSPIGINLGANKDSKDFILDYVSGIRLFFTI 163
++N +G N G L + +P+ ++ + + ++V
Sbjct: 61 -GGMLNAIGLQNPGVEAFLEELLPWLREFGTPVIASIAG--STVE---EFVEVAEKLADA 114
Query: 164 -ASYFTINISSPNTP--GLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPDL 220
A +NIS PN G+ + + ++ + +K VP+ +K++P++
Sbjct: 115 GADAIELNISCPNVKGGGMAFGTDPEAVAEIV---------KAVKKATDVPVIVKLTPNV 165
Query: 221 SEEELDDIAVEVLSHKVEGIIVSNTTL-------SRKGVQCSDNHEQDGGLSGSPLFLKS 273
++ + +IA +G+ + NT +RK + + GGLSG +
Sbjct: 166 TD--IVEIARAAEEAGADGLTLINTLKGMAIDIETRKPILGNVT----GGLSGPAIK--- 216
Query: 274 TIALAKIRQ-RVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQ 332
IAL + Q +I IIG GGI+S +DAL+ +MAGA+ +Q+ +A + K II+
Sbjct: 217 PIALRMVYQVYKAVEIPIIGVGGIASGEDALEFLMAGASAVQVGTA-NFVDPEAFKEIIE 275
Query: 333 GLSDFLNKENEVNFENIRGS 352
GL +L++E + E + G
Sbjct: 276 GLEAYLDEEGIKSIEELVGL 295
>gnl|CDD|37010 KOG1799, KOG1799, KOG1799, Dihydropyrimidine dehydrogenase
[Nucleotide transport and metabolism].
Length = 471
Score = 76.7 bits (188), Expect = 9e-15
Identities = 71/362 (19%), Positives = 137/362 (37%), Gaps = 38/362 (10%)
Query: 23 HLSIVALKSGLLSFFPVHSDPRLNTKVAGISLSNPLGMAAG-YDKNAEVPIELLKLGFGF 81
+++ +GL + + S L G +NP + AE+ G+G+
Sbjct: 82 DFTVIEDYTGLKALLYLKSIEELVD-WDGQKPANPFHQKSKPPPTIAELMDRAFPSGWGY 140
Query: 82 VEIGTVT-PHPQAGNPRPRVFRLTKDRA----------IINKLGFNNAGYH-TVFSRLSK 129
+E T + N PRV R R+ I + A + F L
Sbjct: 141 LEQKTKILDENKVRNVEPRVARSPTKRSCFIPKRPIPTNIELISDRKAEQYLGTFGELKN 200
Query: 130 IQPTSPIGINLGANKDSKDFILDYVSGIRLFFTIASYFTINISSPNTPGLRSLQKKKNLE 189
++P + + + K ++ SG + N+S P+ R +
Sbjct: 201 VEPVVIMIASEMCIYNKKCWMELNDSGEQ---AGQDDLETNLSCPHGMCERGMGLALGQC 257
Query: 190 RLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSR 249
++ + K +P+ K++P++ + ++A V EGI NT +S
Sbjct: 258 PIVDCEVCGWINAKAT----IPMVSKMTPNI--TDKREVARSVNPVGCEGIAAINTIMSV 311
Query: 250 KGVQ--------CSDNHEQDGGLSGS---PLFLKSTIALAKIRQRVGPKIAIIGTGGISS 298
G+ C + + GG S P+ L + +AK+ + + ++ G GG+ +
Sbjct: 312 MGIDMKTLRPEPCVEGYSTPGGYSYKAVRPIALAKVMNIAKMMK----EFSLSGIGGVET 367
Query: 299 TKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQGLSDFLNKENEVNFENIRGSYTEYWA 358
DA + I+ G+N +Q+ + ++ G K + L DF+ + N E RG +Y+
Sbjct: 368 GYDAAEFILLGSNTVQVCTGVMMHGYGHVKTLCAELKDFMKQHNFSTIEEFRGHSLQYFT 427
Query: 359 KK 360
Sbjct: 428 TH 429
>gnl|CDD|73403 cd04741, DHOD_1A_like, Dihydroorotate dehydrogenase (DHOD) class 1A
FMN-binding domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively..
Length = 294
Score = 76.5 bits (188), Expect = 1e-14
Identities = 75/312 (24%), Positives = 120/312 (38%), Gaps = 42/312 (13%)
Query: 47 TKVAGISLSNPLGMAAG-YDKNAEVPIELLKLGFGFVEIGTVTPHPQAGNPRPRVFRLTK 105
G+++S PL AAG + E +EL G V + T + GNP PR +
Sbjct: 1 VTPPGLTISPPLMNAAGPWCTTLEDLLELAASSTGAVTTRSSTLAGRPGNPEPRYYAFPL 60
Query: 106 DRAIINKLGFNNAGYHTVFSRLSKIQPTSPIGINLGANKDSKDFIL-------DYVSGIR 158
IN LG N G + I G +K F + D + +
Sbjct: 61 --GSINSLGLPNLGLDYYLEYIRTISD--------GLPGSAKPFFISVTGSAEDIAAMYK 110
Query: 159 LFFTIASYFT----INISSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFL 214
F +N+S PN PG + + L ++ +K +P+ +
Sbjct: 111 KIAAHQKQFPLAMELNLSCPNVPG--KPPPAYDFDATLEYL------TAVKAAYSIPVGV 162
Query: 215 KISPDLSEEELDDIAVEVLSHKVEGI--IVSNTTLSRKGVQCSDNHEQD--------GGL 264
K P + D +A E L+ I I + TL G+ E GGL
Sbjct: 163 KTPPYTDPAQFDTLA-EALNAFACPISFITATNTLG-NGLVLDPERETVVLKPKTGFGGL 220
Query: 265 SGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGI 324
+G+ L + + R+ + +I IIG GG+ + A +AGA+ +Q+ +A+ EG
Sbjct: 221 AGAYLHPLALGNVRTFRRLLPSEIQIIGVGGVLDGRGAFRMRLAGASAVQVGTALGKEGP 280
Query: 325 SLPKRIIQGLSD 336
+ RI + L D
Sbjct: 281 KVFARIEKELED 292
>gnl|CDD|73382 cd02940, DHPD_FMN, Dihydropyrimidine dehydrogenase (DHPD)
FMN-binding domain. DHPD catalyzes the first step in
pyrimidine degradation: the NADPH-dependent reduction of
uracil and thymine to the corresponding
5,6-dihydropyrimidines. DHPD contains two FAD, two FMN,
and eight [4Fe-4S] clusters, arranged in two electron
transfer chains that pass the dimer interface twice. Two
of the Fe-S clusters show a hitherto unobserved
coordination involving a glutamine residue..
Length = 299
Score = 73.0 bits (179), Expect = 1e-13
Identities = 68/314 (21%), Positives = 125/314 (39%), Gaps = 40/314 (12%)
Query: 45 LNTKVAGISLSNPLGMAAG-YDKNAEVPIELLKLGFGFVEIGTVTP-HPQAGNPRPRVFR 102
L+ GI NP G+A+ + + + G+G T+ N PR+ R
Sbjct: 2 LSVTFCGIKFPNPFGLASAPPTTSYPMIRRAFEAGWGGAVTKTLGLDKDIVTNVSPRIAR 61
Query: 103 LTKDRAIINKLGFNN---------AGYHTVFSRLSKIQPTSPI--GINLGANKDSKDFIL 151
L ++GFNN + L K P + I NK+ +
Sbjct: 62 LRTSGR--GQIGFNNIELISEKPLEYWLKEIRELKKDFPDKILIASIMCEYNKEDWTELA 119
Query: 152 DYVSGIRLFFTIASYFTINISSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVP 211
V A +N S P+ R + + L+ R ++ +P
Sbjct: 120 KLVEE-----AGADALELNFSCPHGMPERGMGAAVGQDPELVE-EICRW---VREAVKIP 170
Query: 212 IFLKISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQ--------CSDNHEQDGG 263
+ K++P++++ + +IA +G+ NT S GV + GG
Sbjct: 171 VIAKLTPNITD--IREIARAAKEGGADGVSAINTVNSLMGVDLDGTPPAPGVEGKTTYGG 228
Query: 264 LSGS---PLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMI 320
SG P+ L+ A+++I + P + I G GGI S +DA + ++ GA+++Q+ +A++
Sbjct: 229 YSGPAVKPIALR---AVSQIARAPEPGLPISGIGGIESWEDAAEFLLLGASVVQVCTAVM 285
Query: 321 YEGISLPKRIIQGL 334
+G ++ + GL
Sbjct: 286 NQGFTIVDDMCTGL 299
>gnl|CDD|73401 cd04739, DHOD_like, Dihydroorotate dehydrogenase (DHOD) like
proteins. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
This subgroup has the conserved FMN binding site, but
lacks some catalytic residues and may therefore be
inactive..
Length = 325
Score = 47.1 bits (112), Expect = 8e-06
Identities = 32/153 (20%), Positives = 67/153 (43%), Gaps = 24/153 (15%)
Query: 210 VPIFLKISPDLSEEELDDIAVEVLSHKVEGIIVSN---------TTLS-RKGVQCSDNHE 259
+P+ +K+SP S L +A ++ + +G+++ N TL + S E
Sbjct: 164 IPVAVKLSPFFSA--LAHMAKQLDAAGADGLVLFNRFYQPDIDLETLEVVPNLLLSSPAE 221
Query: 260 QDGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAM 319
L +A + RV +A +GG+ +D + ++AGA+++ SA+
Sbjct: 222 IRLPLRW----------IAILSGRVKASLAA--SGGVHDAEDVVKYLLAGADVVMTTSAL 269
Query: 320 IYEGISLPKRIIQGLSDFLNKENEVNFENIRGS 352
+ G ++ GL ++ + + + +RGS
Sbjct: 270 LRHGPDYIGTLLAGLEAWMEEHGYESVQQLRGS 302
>gnl|CDD|73371 cd02809, alpha_hydroxyacid_oxid_FMN, Family of homologous
FMN-dependent alpha-hydroxyacid oxidizing enzymes. This
family occurs in both prokaryotes and eukaryotes.
Members of this family include flavocytochrome b2
(FCB2), glycolate oxidase (GOX), lactate monooxygenase
(LMO), mandelate dehydrogenase (MDH), and long chain
hydroxyacid oxidase (LCHAO). In green plants, glycolate
oxidase is one of the key enzymes in photorespiration
where it oxidizes glycolate to glyoxylate. LMO catalyzes
the oxidation of L-lactate to acetate and carbon
dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate.
It is an enzyme in the mandelate pathway that occurs in
several strains of Pseudomonas which converts
(R)-mandelate to benzoate..
Length = 299
Score = 41.6 bits (98), Expect = 3e-04
Identities = 28/96 (29%), Positives = 43/96 (44%), Gaps = 23/96 (23%)
Query: 229 AVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGG--LSGSPLFLKSTI-ALAKIRQRVG 285
A+ + +GI+VSN H GG L G+P +TI AL +I VG
Sbjct: 186 ALRAVDAGADGIVVSN-------------H---GGRQLDGAP----ATIDALPEIVAAVG 225
Query: 286 PKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIY 321
+I ++ GGI D L + GA+ + + +Y
Sbjct: 226 GRIEVLLDGGIRRGTDVLKALALGADAVLIGRPFLY 261
>gnl|CDD|144604 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 301
Score = 41.3 bits (98), Expect = 5e-04
Identities = 38/118 (32%), Positives = 54/118 (45%), Gaps = 35/118 (29%)
Query: 210 VPIFLK--ISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGG--LS 265
P+ LK +SP+ D A + V+GI+VSN H GG L
Sbjct: 170 GPLVLKGILSPE-------D-AKRAVEAGVDGIVVSN-------------H---GGRQLD 205
Query: 266 GSPLFLKSTI-ALAKIRQRVGPKIAIIGTGGISSTKDALDKIMA-GANLIQLYSAMIY 321
G+P +TI AL +I VG +I ++ GGI D L K +A GA+ + L +Y
Sbjct: 206 GAP----ATIDALPEIVAAVGGRIPVLVDGGIRRGTDVL-KALALGADAVLLGRPFLY 258
>gnl|CDD|31495 COG1304, LldD, L-lactate dehydrogenase (FMN-dependent) and related
alpha-hydroxy acid dehydrogenases [Energy production and
conversion].
Length = 360
Score = 36.8 bits (85), Expect = 0.009
Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 14/114 (12%)
Query: 222 EEELDDIAVEVLSHKVEGIIVSNTT--LSRKGVQCSDNHEQDGGLSGSPLFLK------- 272
E + ++V V+S + I L KG+ ++ GG + +
Sbjct: 194 AEYVSALSVPVISKEDGAGISKEWAGPLVLKGILAPEDAAGAGGTGADGIEVSNHGGRQL 253
Query: 273 ----STI-ALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIY 321
ST +L +I + VG +I +I GGI S D + GA+ + + +Y
Sbjct: 254 DWGISTADSLPEIVEAVGDRIEVIADGGIRSGLDVAKALALGADAVGIGRPFLY 307
>gnl|CDD|32253 COG2070, COG2070, Dioxygenases related to 2-nitropropane
dioxygenase [General function prediction only].
Length = 336
Score = 34.2 bits (78), Expect = 0.061
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 262 GGLSGSPLFLKSTIAL-AKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMI 320
GG G ST AL ++ V I +I GGI+ + + GA+ +Q+ + +
Sbjct: 159 GGHRGGVDLEVSTFALVPEVVDAV-DGIPVIAAGGIADGRGIAAALALGADGVQMGTRFL 217
Query: 321 Y 321
Sbjct: 218 A 218
>gnl|CDD|30622 COG0274, DeoC, Deoxyribose-phosphate aldolase [Nucleotide transport
and metabolism].
Length = 228
Score = 32.1 bits (73), Expect = 0.23
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 9/55 (16%)
Query: 280 IRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYEGISLPKRIIQGL 334
+++ VG ++ + +GGI + +DA I AGA I G S I++GL
Sbjct: 176 MKETVGGRVGVKASGGIRTAEDAKAMIEAGATRI---------GTSSGVAILEGL 221
>gnl|CDD|73383 cd03332, LMO_FMN, L-Lactate 2-monooxygenase (LMO) FMN-binding
domain. LMO is a FMN-containing enzyme that catalyzes
the conversion of L-lactate and oxygen to acetate,
carbon dioxide, and water. LMO is a member of the family
of alpha-hydroxy acid oxidases. It is thought to be a
homooctamer with two- and four- fold axes in the center
of the octamer..
Length = 383
Score = 32.1 bits (73), Expect = 0.26
Identities = 26/102 (25%), Positives = 44/102 (43%), Gaps = 27/102 (26%)
Query: 211 PIFLK--ISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSP 268
PI LK + PD D A + V+G++VSN G Q DG ++
Sbjct: 255 PIVLKGILHPD-------D-ARRAVEAGVDGVVVSN----HGGRQ------VDGSIA--- 293
Query: 269 LFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGA 310
+ AL +I + VG ++ ++ G+ + D + + GA
Sbjct: 294 ----ALDALPEIVEAVGDRLTVLFDSGVRTGADIMKALALGA 331
>gnl|CDD|107273 cd06278, PBP1_LacI_like_2, Ligand-binding domain of uncharacterized
DNA-binding regulatory proteins that are members of the
LacI-GalR family of bacterial transcription repressors.
This group includes the ligand-binding domain of
uncharacterized DNA-binding regulatory proteins that are
members of the LacI-GalR family of bacterial
transcription repressors. The LacI-GalR family
repressors are composed of two functional domains: an
N-terminal HTH (helix-turn-helix) domain, which is
responsible for the DNA-binding specificity, and a
C-terminal ligand-binding domain, which is homologous to
the sugar-binding domain of ABC-type transport systems
that contain the type I periplasmic binding protein-like
fold. As also observed in the periplasmic binding
proteins, the C-terminal domain of the bacterial
transcription repressor undergoes a conformational
change upon ligand binding which in turn changes the DNA
binding affinity of the repressor.
Length = 266
Score = 31.4 bits (72), Expect = 0.42
Identities = 15/51 (29%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 209 FVPIFLKISPDLSEEELDDIAVEVLSHKVEGIIVSNTTLSRKGV-QCSDNH 258
+ P+ + D E+LD ++L ++V+G+IV++ TLS + +C N
Sbjct: 30 YQPLLINTDDD---EDLDAALRQLLQYRVDGVIVTSGTLSSELAEECRRNG 77
>gnl|CDD|73370 cd02808, GltS_FMN, Glutamate synthase (GltS) FMN-binding domain.
GltS is a complex iron-sulfur flavoprotein that
catalyzes the reductive synthesis of L-glutamate from
2-oxoglutarate and L-glutamine via intramolecular
channelling of ammonia, a reaction in the plant, yeast
and bacterial pathway for ammonia assimilation. It is a
multifunctional enzyme that functions through three
distinct active centers, carrying out L-glutamine
hydrolysis, conversion of 2-oxoglutarate into
L-glutamate, and electron uptake from an electron
donor..
Length = 392
Score = 31.3 bits (71), Expect = 0.44
Identities = 30/161 (18%), Positives = 58/161 (36%), Gaps = 40/161 (24%)
Query: 171 ISSPNTPGLRSLQKKKNLERLLIHVMQTREEEKIKTGKFVPIFLKISPDLSEEELDDIAV 230
IS P + S+ E L + RE PI +K+ + DIA
Sbjct: 187 ISPPPHHDIYSI------EDLAQLIEDLREA-----TGGKPIGVKLV---AGHGEGDIAA 232
Query: 231 EVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSPLFLK------STIALAKIRQR- 283
V + + I + +GG +PL + + LA+ Q
Sbjct: 233 GVAAAGADFITIDG---------------AEGGTGAAPLTFIDHVGLPTELGLARAHQAL 277
Query: 284 ----VGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMI 320
+ ++++I +GG+ + D + GA+ + + +A +
Sbjct: 278 VKNGLRDRVSLIASGGLRTGADVAKALALGADAVGIGTAAL 318
>gnl|CDD|73397 cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN
binding domain, group 4. Each monomer of OYE contains
FMN as a non-covalently bound cofactor, uses NADPH as a
reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Other members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase..
Length = 353
Score = 30.9 bits (70), Expect = 0.57
Identities = 10/43 (23%), Positives = 27/43 (62%)
Query: 280 IRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIYE 322
+++R+ ++ +I G I++ DAL+ + GA+L+ + ++ +
Sbjct: 277 VKERIAGRLPLIAVGSINTPDDALEALETGADLVAIGRGLLVD 319
>gnl|CDD|29952 cd00959, DeoC, 2-deoxyribose-5-phosphate aldolase (DERA) of the
DeoC family. DERA belongs to the class I aldolases and
catalyzes a reversible aldol reaction between
acetaldehyde and glyceraldehyde 3-phosphate to generate
2-deoxyribose 5-phosphate. DERA is unique in catalyzing
the aldol reaction between two aldehydes, and its broad
substrate specificity confers considerable utility as a
biocatalyst, offering an environmentally benign
alternative to chiral transition metal catalysis of the
asymmetric aldol reaction..
Length = 203
Score = 30.5 bits (69), Expect = 0.65
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 280 IRQRVGPKIAIIGTGGISSTKDALDKIMAGANLI 313
+++ VG ++ + GGI + +DAL I AGA I
Sbjct: 167 MKEAVGGRVGVKAAGGIRTLEDALAMIEAGATRI 200
>gnl|CDD|29940 cd00945, Aldolase_Class_I, Class I aldolases. The class I aldolases
use an active-site lysine which stablilzes a reaction
intermediates via Schiff base formation, and have TIM
beta/alpha barrel fold. The members of this family
include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and
2-keto-4-hydroxyglutarate (KHG) aldolases,
transaldolase, dihydrodipicolinate synthase sub-family,
Type I 3-dehydroquinate dehydratase, DeoC and DhnA
proteins, and metal-independent
fructose-1,6-bisphosphate aldolase. Although
structurally similar, the class II aldolases use a
different mechanism and are believed to have an
independent evolutionary origin..
Length = 201
Score = 30.3 bits (68), Expect = 0.79
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 276 ALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLI 313
+ +++ VG ++ + GGI + +DAL I AGA+ I
Sbjct: 161 DVKLMKEAVGGRVGVKAAGGIKTLEDALAAIEAGADGI 198
>gnl|CDD|73384 cd04722, TIM_phosphate_binding, TIM barrel proteins share a
structurally conserved phosphate binding motif and in
general share an eight beta/alpha closed barrel
structure. Specific for this family is the conserved
phosphate binding site at the edges of strands 7 and 8.
The phosphate comes either from the substrate, as in the
case of inosine monophosphate dehydrogenase (IMPDH), or
from ribulose-5-phosphate 3-epimerase (RPE) or from
cofactors, like FMN..
Length = 200
Score = 30.2 bits (67), Expect = 0.84
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 261 DGGLSGSPLFLKSTIALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQL 315
+GG G L I + G K+ +I GGI+ +DA + + GA+ + +
Sbjct: 144 NGGGGGGGRDAVPIADLLLILAKRGSKVPVIAGGGINDPEDAAEALALGADGVIV 198
>gnl|CDD|73392 cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the
nitroalkane oxidizing enzyme families, catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDP is a
member of the NAD(P)H-dependent flavin oxidoreductase
family that reduce a range of alternative electron
acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as
electron donor. Some contain 4Fe-4S cluster to transfer
electron from FAD to FMN..
Length = 236
Score = 29.7 bits (67), Expect = 1.3
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 262 GGLSGSPLFLKSTIAL-AKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQLYSAMI 320
GG G+ F T AL ++R V I +I GGI+ + + GA+ +Q+ + +
Sbjct: 134 GGHRGT--FDIGTFALVPEVRDAV--DIPVIAAGGIADGRGIAAALALGADGVQMGTRFL 189
>gnl|CDD|39161 KOG3958, KOG3958, KOG3958, Putative dynamitin [Cytoskeleton].
Length = 371
Score = 29.3 bits (65), Expect = 1.6
Identities = 29/134 (21%), Positives = 61/134 (45%), Gaps = 13/134 (9%)
Query: 186 KNLERLLIHVMQ-TREEEKIKTGKFVPIFLKISPDLSEEELDDIAVEVLSHKVEGIIVSN 244
+ +RLL V + T E EKIKT K K++P L + L + ++++ +E ++ +
Sbjct: 94 QKYQRLLHEVQELTTEVEKIKTDKESATEEKLTPVLLAKVLAALKKQLVALHLEQLLGKD 153
Query: 245 TT----LSRKGVQCSDNHEQDGGLSGSP---LFLKSTIALAKIRQRVGPKIAIIGTGGIS 297
T L ++ + + + G +G+P +A++ +R+ ++G
Sbjct: 154 ATPDGALVKRLLLQLEATKNSGKTTGTPRPEQDFSQAAKVAELEKRLTELETVVG----- 208
Query: 298 STKDALDKIMAGAN 311
+DA + + AG
Sbjct: 209 CDQDAQNPLSAGLQ 222
>gnl|CDD|73376 cd02922, FCB2_FMN, Flavocytochrome b2 (FCB2) FMN-binding domain.
FCB2 (AKA L-lactate:cytochrome c oxidoreductase) is a
respiratory enzyme located in the intermembrane space of
fungal mitochondria which catalyzes the oxidation of
L-lactate to pyruvate. FCB2 also participates in a short
electron-transport chain involving cytochrome c and
cytochrome oxidase which ultimately directs the reducing
equivalents gained from L-lactate oxidation to oxygen,
yielding one molecule of ATP for every L-lactate
molecule consumed. FCB2 is composed of 2 domains: a
C-terminal flavin-binding domain, which includes the
active site for lacate oxidation, and an N-terminal
b2-cytochrome domain, required for efficient cytochrome
c reduction. FCB2 is a homotetramer and contains two
noncovalently bound cofactors, FMN and heme per
subunit..
Length = 344
Score = 29.4 bits (66), Expect = 1.7
Identities = 30/115 (26%), Positives = 46/115 (40%), Gaps = 24/115 (20%)
Query: 229 AVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGG--LSGSPLFLKSTIALAKIRQRVGP 286
AV + V+GI++SN H GG L +P ++ + + K V
Sbjct: 227 AVLAAEYGVDGIVLSN-------------H---GGRQLDTAPAPIEVLLEIRKHCPEVFD 270
Query: 287 KIAIIGTGGISSTKDALDKIMAGANLIQ-----LYSAMIYEGISLPKRIIQGLSD 336
KI + GG+ D L + GA + LY A+ G ++ IQ L D
Sbjct: 271 KIEVYVDGGVRRGTDVLKALCLGAKAVGLGRPFLY-ALSAYGEEGVEKAIQILKD 324
>gnl|CDD|29938 cd00452, KDPG_aldolase, KDPG and KHG aldolase. This family belongs
to the class I adolases whose reaction mechanism
involves Schiff base formation between a substrate
carbonyl and lysine residue in the active site.
2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is
best known for its role in the Entner-Doudoroff pathway
of bacteria, where it catalyzes the reversible cleavage
of KDPG to pyruvate and glyceraldehyde-3-phosphate.
2-keto-4-hydroxyglutarate (KHG) aldolase, which has
enzymatic specificity toward glyoxylate, forming KHG in
the presence of pyruvate, and is capable of regulating
glyoxylate levels in the glyoxylate bypass, an alternate
pathway when bacteria are grown on acetate carbon
sources..
Length = 190
Score = 29.0 bits (65), Expect = 2.1
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 276 ALAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLI 313
A+ +R+ A+IG G + + + A I AGA I
Sbjct: 45 AIRALRKEFPE--ALIGAGTVLTPEQADAAIAAGAQFI 80
>gnl|CDD|73373 cd02811, IDI-2_FMN, Isopentenyl-diphosphate:dimethylallyl
diphosphate isomerase type 2 (IDI-2) FMN-binding domain.
Two types of IDIs have been characterized at present.
The long known IDI-1 is only dependent on divalent
metals for activity, whereas IDI-2 requires a metal, FMN
and NADPH. IDI-2 catalyzes the interconversion of
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP) in the mevalonate pathway..
Length = 326
Score = 28.9 bits (65), Expect = 2.4
Identities = 9/32 (28%), Positives = 17/32 (53%)
Query: 282 QRVGPKIAIIGTGGISSTKDALDKIMAGANLI 313
+ P + +I +GGI + D + GA+L+
Sbjct: 250 RSALPDLPLIASGGIRNGLDIAKALALGADLV 281
>gnl|CDD|35758 KOG0538, KOG0538, KOG0538, Glycolate oxidase [Energy production and
conversion].
Length = 363
Score = 27.9 bits (62), Expect = 4.0
Identities = 23/95 (24%), Positives = 38/95 (40%), Gaps = 21/95 (22%)
Query: 229 AVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGG--LSGSPLFLKSTIALAKIRQRVGP 286
A + + V GIIVS NH GG L P + AL ++ + V
Sbjct: 237 ARKAVEAGVAGIIVS-------------NH---GGRQLDYVP---ATIEALPEVVKAVEG 277
Query: 287 KIAIIGTGGISSTKDALDKIMAGANLIQLYSAMIY 321
+I + GG+ D L + GA + + +++
Sbjct: 278 RIPVFLDGGVRRGTDVLKALALGAKGVFIGRPIVW 312
>gnl|CDD|31292 COG1095, RPB7, DNA-directed RNA polymerase, subunit E'
[Transcription].
Length = 183
Score = 27.9 bits (62), Expect = 4.1
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 215 KISPDLSEEELDDIAVEVLSHKVEGIIVSN 244
+I P E+L++ E L K EG + +
Sbjct: 12 RIPPSYFGEDLEEAVKEELKEKYEGKLDGD 41
>gnl|CDD|32083 COG1899, DYS1, Deoxyhypusine synthase [Posttranslational
modification, protein turnover, chaperones].
Length = 318
Score = 27.9 bits (62), Expect = 5.2
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 214 LKISPDLSEEELDDIAVEVLSHKVEGIIVS---------NTTLSRKG----VQCSDNHEQ 260
LKI EL+DI + K II+ L R G VQ +
Sbjct: 212 LKIDIVEDVHELNDIVFN--AEKTGAIILGGGVPKHHIIQANLFRGGLDYAVQITTARPY 269
Query: 261 DGGLSGSPLFLKSTIALAKIR 281
DG LSG+ + ++ KI+
Sbjct: 270 DGSLSGAT--PEEAVSWGKIK 288
>gnl|CDD|111754 pfam02900, LigB, Catalytic LigB subunit of aromatic ring-opening
dioxygenase.
Length = 265
Score = 27.3 bits (61), Expect = 6.6
Identities = 10/22 (45%), Positives = 18/22 (81%)
Query: 276 ALAKIRQRVGPKIAIIGTGGIS 297
ALAK R+++ ++ +IG+GG+S
Sbjct: 158 ALAKAREKLPERVLVIGSGGLS 179
>gnl|CDD|29637 cd00537, MTHFR, Methylenetetrahydrofolate reductase (MTHFR).
5,10-Methylenetetrahydrofolate is reduced to
5-methyltetrahydrofolate by methylenetetrahydrofolate
reductase, a cytoplasmic, NAD(P)-dependent enzyme.
5-methyltetrahydrofolate is utilized by methionine
synthase to convert homocysteine to methionine. The
enzymatic mechanism is a ping-pong bi-bi mechanism, in
which NAD(P)+ release precedes the binding of
methylenetetrahydrofolate and the acceptor is free FAD.
The family includes the 5,10-methylenetetrahydrofolate
reductase EC:1.7.99.5 from prokaryotes and
methylenetetrahydrofolate reductase EC: 1.5.1.20 from
eukaryotes. The bacterial enzyme is a homotetramer and
NADH is the preferred reductant while the eukaryotic
enzyme is a homodimer and NADPH is the preferred
reductant. In humans, there are several clinically
significant mutations in MTHFR that result in
hyperhomocysteinemia, which is a risk factor for the
development of cardiovascular disease..
Length = 274
Score = 27.2 bits (60), Expect = 6.8
Identities = 19/84 (22%), Positives = 29/84 (34%), Gaps = 9/84 (10%)
Query: 62 AGYDKNAEVPIELLKL----GFGFVEIGTVTPHPQAGNPRPRVFRLTKD-----RAIINK 112
A +EL++ GF HP+A + + RL + II +
Sbjct: 108 PVGFVYAVDLVELIRKENGGGFSIGVAAYPEGHPEAPSLEEDIKRLKRKVDAGADFIITQ 167
Query: 113 LGFNNAGYHTVFSRLSKIQPTSPI 136
L F+N + R T PI
Sbjct: 168 LFFDNDAFLRFVDRCRAAGITVPI 191
>gnl|CDD|73375 cd02911, arch_FMN, Archeal FMN-binding domain. This family of
archaeal proteins are part of the NAD(P)H-dependent
flavin oxidoreductase (oxidored) FMN-binding family that
reduce a range of alternative electron acceptors. Most
use FAD/FMN as a cofactor and NAD(P)H as electron donor.
Some contain 4Fe-4S cluster to transfer electron from
FAD to FMN. The specific function of this group is
unknown..
Length = 233
Score = 27.2 bits (60), Expect = 7.6
Identities = 10/39 (25%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 277 LAKIRQRVGPKIAIIGTGGISSTKDALDKIMAGANLIQL 315
L KIR + ++ IIG +++ + A + GA+++ +
Sbjct: 182 LKKIR-DISTELFIIGNNSVTTIESAKEMFSYGADMVSV 219
>gnl|CDD|112389 pfam03569, Peptidase_C8, Peptidase family C8.
Length = 213
Score = 26.9 bits (59), Expect = 7.9
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 3/58 (5%)
Query: 105 KDRAIINKLGFNNAGYHTVFSRLSKIQPTSPIGINLGANKDSKDFILDYVSGIRLFFT 162
+ + + G N GYH + +RL + + +GA + I DYV F
Sbjct: 114 EAGCVHCEPGDNFRGYHEIKARLEECEGIDEEPCLVGAEEGK---IADYVGAAGHFLF 168
>gnl|CDD|38831 KOG3625, KOG3625, KOG3625, Alpha amylase [Carbohydrate transport
and metabolism].
Length = 1521
Score = 26.9 bits (59), Expect = 8.5
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 118 AGYHTVFSRLSKIQPTSPIGINLGANKDSKDFILDYVSG 156
G + S L++I+P + +G L N D+++DY+S
Sbjct: 925 CGLQGLVSVLAEIRPKNDLGHPLCNNLRDGDWMIDYISN 963
>gnl|CDD|30455 COG0106, HisA, Phosphoribosylformimino-5-aminoimidazole carboxamide
ribonucleotide (ProFAR) isomerase [Amino acid transport
and metabolism].
Length = 241
Score = 26.7 bits (59), Expect = 9.2
Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 20/81 (24%)
Query: 221 SEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSPLFLKSTIALAKI 280
S EL+++A + + I+ T +SR DG LSG + L + ++
Sbjct: 145 SGVELEELAKRLEEVGLAHILY--TDISR-----------DGTLSGPNVDL-----VKEL 186
Query: 281 RQRVGPKIAIIGTGGISSTKD 301
+ V I +I +GG+SS D
Sbjct: 187 AEAV--DIPVIASGGVSSLDD 205
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.318 0.137 0.388
Gapped
Lambda K H
0.267 0.0540 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,325,812
Number of extensions: 233606
Number of successful extensions: 757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 722
Number of HSP's successfully gapped: 49
Length of query: 362
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 267
Effective length of database: 4,210,882
Effective search space: 1124305494
Effective search space used: 1124305494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.6 bits)