RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2386
(311 letters)
>gnl|CDD|236991 PRK11815, PRK11815, tRNA-dihydrouridine synthase A; Provisional.
Length = 333
Score = 485 bits (1250), Expect = e-174
Identities = 157/292 (53%), Positives = 213/292 (72%), Gaps = 5/292 (1%)
Query: 1 MNLTDRHCRMFHRQITRYSWLYTEMFTTQAIL-GNKKHCLDFNAEEHPIAFQVGDNEPKK 59
M+ TDRHCR FHR ++R++ LYTEM TT AI+ G+++ L F+ EEHP+A Q+G ++P
Sbjct: 19 MDWTDRHCRYFHRLLSRHALLYTEMVTTGAIIHGDRERLLAFDPEEHPVALQLGGSDPAD 78
Query: 60 LAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITV 119
LA++AK+ + WGYDEINLN GCPS+RVQNG FGA LM +P LV+DC+KAM+D+V I +TV
Sbjct: 79 LAEAAKLAEDWGYDEINLNVGCPSDRVQNGRFGACLMAEPELVADCVKAMKDAVSIPVTV 138
Query: 120 KHRIGIDDINSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYN 179
KHRIGIDD +SY+F+ DFV TV+ AGC TFIVHAR A+LK L+PK+NR+IP L Y+ VY
Sbjct: 139 KHRIGIDDQDSYEFLCDFVDTVAEAGCDTFIVHARKAWLKGLSPKENREIPPLDYDRVYR 198
Query: 180 LKKDFPELEIIINGGIKTKKEIDLHLNYIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYK 239
LK+DFP L I INGGIKT +E HL ++DGVM+GR AY NP+L++ D +
Sbjct: 199 LKRDFPHLTIEINGGIKTLEEAKEHLQHVDGVMIGRAAYHNPYLLAEVDRELFGEPA--P 256
Query: 240 IPTRIDIINRMILYIRQQLNNNKIKNINSITRHMLGLMKNIKGSNKFKQILS 291
+R +++ M+ YI + L +N ITRHMLGL + + G+ +++ LS
Sbjct: 257 PLSRSEVLEAMLPYIERHLAQG--GRLNHITRHMLGLFQGLPGARAWRRYLS 306
>gnl|CDD|129825 TIGR00742, yjbN, tRNA dihydrouridine synthase A. This model
represents one branch of COG0042 (Predicted TIM-barrel
enzymes, possibly dehydrogenases, nifR3 family). It
represents a distinct subset by a set of shared unique
motifs, a conserved pattern of insertions/deletions
relative to other nifR3 homologs, and by subclustering
based on cross-genome bidirectional best hits. Members
are found in species as diverse as the proteobacteria, a
spirochete, a cyanobacterium, and Deinococcus
radiodurans. NifR3 itself, a protein of unknown function
associated with nitrogen regulation in Rhodobacter
capsulatus, is not a member of this branch. Members of
this family show a distant relationship to alpha/beta
(TIM) barrel enzymes such as dihydroorotate
dehydrogenase and glycolate oxidase [Protein synthesis,
tRNA and rRNA base modification].
Length = 318
Score = 368 bits (947), Expect = e-128
Identities = 153/297 (51%), Positives = 215/297 (72%), Gaps = 5/297 (1%)
Query: 1 MNLTDRHCRMFHRQITRYSWLYTEMFTTQAIL-GNKKHCLDFNAEEHPIAFQVGDNEPKK 59
++ TDRH R F R +++++ LYTEM T +AI+ G+KK L F+ EE P+A Q+G ++P
Sbjct: 9 LDWTDRHFRYFLRLLSKHTLLYTEMITAKAIIHGDKKDILKFSPEESPVALQLGGSDPND 68
Query: 60 LAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITV 119
LAK AKI +K GYDEINLN GCPS+RVQNG FGA LM LV+DC+KAM+++V I +TV
Sbjct: 69 LAKCAKIAEKRGYDEINLNVGCPSDRVQNGNFGACLMGNADLVADCVKAMQEAVNIPVTV 128
Query: 120 KHRIGIDDINSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYN 179
KHRIGID ++SY+F+ DFV VS GC+ FIVHAR A+L L+PK+NR+IP L+Y VY
Sbjct: 129 KHRIGIDPLDSYEFLCDFVEIVSGKGCQNFIVHARKAWLSGLSPKENREIPPLRYERVYQ 188
Query: 180 LKKDFPELEIIINGGIKTKKEIDLHLNYIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYK 239
LKKDFP L I INGGIK ++I HL+++DGVM+GREAY+NP+L++N D ++ +
Sbjct: 189 LKKDFPHLTIEINGGIKNSEQIKQHLSHVDGVMVGREAYENPYLLANVDREIFN--ETDE 246
Query: 240 IPTRIDIINRMILYIRQQLNNNKIKNINSITRHMLGLMKNIKGSNKFKQILSKPNLL 296
I TR +I+ +M+ YI + L+ ++N ITRH+LGL + G+ ++++ LS+
Sbjct: 247 ILTRKEIVEQMLPYIEEYLSQG--LSLNHITRHLLGLFQGKPGAKQWRRYLSENAPK 301
>gnl|CDD|223120 COG0042, COG0042, tRNA-dihydrouridine synthase [Translation,
ribosomal structure and biogenesis].
Length = 323
Score = 242 bits (619), Expect = 1e-78
Identities = 97/301 (32%), Positives = 154/301 (51%), Gaps = 21/301 (6%)
Query: 1 MNLTDRHCRMFHRQITRYSWLYTEMFTTQAIL-GNKK--HCLDFNAEEHPIAFQVGDNEP 57
+TD R R++ Y LYTEM + +A+L G KK LD EE P+A Q+G ++P
Sbjct: 19 AGVTDLPFRRLARELGAYDLLYTEMVSAKALLHGRKKFLLLLDELEEERPVAVQLGGSDP 78
Query: 58 KKLAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVE-ID 116
+ LA++AKI ++ G D I+LNCGCPS +V G GA L+ P L+++ +KAM ++V I
Sbjct: 79 ELLAEAAKIAEELGADIIDLNCGCPSPKVVKGGAGAALLKNPELLAEIVKAMVEAVGDIP 138
Query: 117 ITVKHRIGIDDINSYDFVRDFVGTVS-SAGCRTFIVHARNAFLKKLNPKQNRKIPILKYN 175
+TVK R+G DD D + + + AG VH R L P ++
Sbjct: 139 VTVKIRLGWDDD---DILALEIARILEDAGADALTVHGRTRAQGYLGP--------ADWD 187
Query: 176 FVYNLKKDFPELEIIINGGIKTKKEIDLHLNYI--DGVMLGREAYKNPFLMSNFDLNYYS 233
++ LK+ P + +I NG IK+ ++ L Y DGVM+GR A NP+L D
Sbjct: 188 YIKELKEAVPSIPVIANGDIKSLEDAKEMLEYTGADGVMIGRGALGNPWLFRQIDYLETG 247
Query: 234 NLPQYKIPTRIDIINRMILYIRQQLNNNKIKNINSITRHMLGLMKNIKGSNKFKQILSKP 293
L + +DI + ++ L K + + +H+ +K + G+ + ++ L+K
Sbjct: 248 ELLPPTLAEVLDI---LREHLELLLEYYGKKGLRRLRKHLGYYLKGLPGARELRRALNKA 304
Query: 294 N 294
Sbjct: 305 E 305
>gnl|CDD|216365 pfam01207, Dus, Dihydrouridine synthase (Dus). Members of this
family catalyze the reduction of the 5,6-double bond of
a uridine residue on tRNA. Dihydrouridine modification
of tRNA is widely observed in prokaryotes and
eukaryotes, and also in some archae. Most
dihydrouridines are found in the D loop of t-RNAs. The
role of dihydrouridine in tRNA is currently unknown, but
may increase conformational flexibility of the tRNA. It
is likely that different family members have different
substrate specificities, which may overlap. Dus 1 from
Saccharomyces cerevisiae acts on pre-tRNA-Phe, while Dus
2 acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active
as a single subunit, requiring NADPH or NADH, and is
stimulated by the presence of FAD. Some family members
may be targeted to the mitochondria and even have a role
in mitochondria.
Length = 309
Score = 231 bits (590), Expect = 1e-74
Identities = 84/298 (28%), Positives = 144/298 (48%), Gaps = 25/298 (8%)
Query: 3 LTDRHCRMFHRQITRYSWLYTEMFTTQAIL-GNKKHCLDFNAEEH--PIAFQVGDNEPKK 59
+TD R R+ + TEM T +A L K+ L E P+A Q+G ++P
Sbjct: 8 VTDLPFRRLVREYGAGDLVVTEMVTAKAQLRPEKQRELMLPELEEPTPLAVQLGGSDPAL 67
Query: 60 LAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITV 119
LA++AK++ G D I++N GCP+ +V G GA L+ P LV+ +KA+ +V+I +TV
Sbjct: 68 LAEAAKLVADLGADIIDINMGCPAKKVTRGGAGAALLRDPDLVAQIVKAVVKAVDIPVTV 127
Query: 120 KHRIGIDDINSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVYN 179
K RIG D+ S++ + V AG + VH R QN + P ++ +
Sbjct: 128 KIRIGWDE--SHENAVEIARRVEDAGAQALTVHGR-------TRAQNYEGPA-DWDAIKQ 177
Query: 180 LKKDFPELEIIINGGIKTKKEIDLHLNYI--DGVMLGREAYKNPFLMSNFDLNYY----S 233
+K+ + +I NG I ++ L+Y DGVM+GR A NP+L F +
Sbjct: 178 VKQAVS-IPVIANGDITDAEDAQRCLSYTGADGVMIGRGALGNPWL---FAEQHTVKTGE 233
Query: 234 NLPQYKIPTRIDIINRMILYIRQQLNNNKIKNINSITRHMLGLMKNIKGSNKFKQILS 291
P+ + +I+ + Y+ + +K + +H+ +K G+ + ++ L+
Sbjct: 234 FDPRPPLAEEAEIVLEHLSYLEEFYGEDKG--LRHARKHLAWYLKGFPGAAELRRELN 289
>gnl|CDD|239200 cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like)
FMN-binding domain. Members of this family catalyze the
reduction of the 5,6-double bond of a uridine residue on
tRNA. Dihydrouridine modification of tRNA is widely
observed in prokaryotes and eukaryotes, and also in some
archaea. Most dihydrouridines are found in the D loop of
t-RNAs. The role of dihydrouridine in tRNA is currently
unknown, but may increase conformational flexibility of
the tRNA. It is likely that different family members
have different substrate specificities, which may
overlap. 1VHN, a putative flavin oxidoreductase, has
high sequence similarity to DUS. The enzymatic
mechanism of 1VHN is not known at the present.
Length = 231
Score = 223 bits (572), Expect = 8e-73
Identities = 73/232 (31%), Positives = 122/232 (52%), Gaps = 20/232 (8%)
Query: 3 LTDRHCRMFHRQITRYSWLYTEMFTTQAILGNKK---HCLDFNAEEHPIAFQVGDNEPKK 59
+TD R+ R+ +YTEM + +A+L + L N EE P+ Q+G ++P+
Sbjct: 10 VTDLPFRLLCRRYG-ADLVYTEMISAKALLRGNRKRLRLLTRNPEERPLIVQLGGSDPET 68
Query: 60 LAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITV 119
LA++AKI+++ G D I+LN GCPS +V G GA L+ P LV++ ++A+R++V I +TV
Sbjct: 69 LAEAAKIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVPIPVTV 128
Query: 120 KHRIGIDD-INSYDFVRDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPILKYNFVY 178
K R+G DD + + + + AG VH R + R ++++
Sbjct: 129 KIRLGWDDEEETLELAK----ALEDAGASALTVHGRTR--------EQRYSGPADWDYIA 176
Query: 179 NLKKDFPELEIIINGGIKTKKEIDLHLNY--IDGVMLGREAYKNPFLMSNFD 228
+ K+ + +I NG I + ++ L +DGVM+GR A NP+L
Sbjct: 177 EI-KEAVSIPVIANGDIFSLEDALRCLEQTGVDGVMIGRGALGNPWLFREIK 227
>gnl|CDD|129820 TIGR00737, nifR3_yhdG, putative TIM-barrel protein, nifR3 family.
This model represents one branch of COG0042 (Predicted
TIM-barrel enzymes, possibly dehydrogenases, nifR3
family). This branch includes NifR3 itself, from
Rhodobacter capsulatus. It excludes a broadly
distributed but more sparsely populated subfamily that
contains sll0926 from Synechocystis PCC6803, HI0634 from
Haemophilus influenzae, and BB0225 from Borrelia
burgdorferi. It also excludes a shorter and more distant
archaeal subfamily.The function of nifR3, a member of
this family, is unknown, but it is found in an operon
with nitrogen-sensing two component regulators in
Rhodobacter capsulatus.Members of this family show a
distant relationship to alpha/beta (TIM) barrel enzymes
such as dihydroorotate dehydrogenase and glycolate
oxidase [Unknown function, General].
Length = 319
Score = 122 bits (308), Expect = 1e-32
Identities = 73/263 (27%), Positives = 117/263 (44%), Gaps = 50/263 (19%)
Query: 11 FHRQITRY--SWLYTEMFTTQAIL---GNKKHCLDFNAEEHPIAFQVGDNEPKKLAKSAK 65
F R + Y EM +++AI+ LD +E PI+ Q+ ++P +A++AK
Sbjct: 23 FRRLVAEYGAGLTVCEMVSSEAIVYDSQRTMRLLDIAEDETPISVQLFGSDPDTMAEAAK 82
Query: 66 IIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITVKHRIGI 125
I ++ G D I++N GCP ++ G+ L+ P L+ +KA+ D+V+I +TVK RIG
Sbjct: 83 INEELGADIIDINMGCPVPKITKKGAGSALLRDPDLIGKIVKAVVDAVDIPVTVKIRIGW 142
Query: 126 DD--INSYDFVRDFVGTVSSAGCRTFIVHARNA-----------FLKKLNPKQNRKIPIL 172
DD IN+ + R AG + +H R + ++ KQ +IP
Sbjct: 143 DDAHINAVEAAR----IAEDAGAQAVTLHGRTRAQGYSGEANWDIIARV--KQAVRIP-- 194
Query: 173 KYNFVYNLKKDFPELEIIINGGIKTKKEIDLHLNY--IDGVMLGREAYKNPFLMSN---- 226
+I NG I + ++ L DGVM+GR A NP+L
Sbjct: 195 ----------------VIGNGDIFSPEDAKAMLETTGCDGVMIGRGALGNPWLFRQIEQY 238
Query: 227 FDLNYYSNLPQYKIPTRIDIINR 249
Y P + ++D I R
Sbjct: 239 LTTGKYKPPPTFA--EKLDAILR 259
>gnl|CDD|236713 PRK10550, PRK10550, tRNA-dihydrouridine synthase C; Provisional.
Length = 312
Score = 59.1 bits (143), Expect = 6e-10
Identities = 39/113 (34%), Positives = 55/113 (48%), Gaps = 11/113 (9%)
Query: 47 PIAFQVGDNEPKKLAKSAK---IIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVS 103
+ Q+ P+ LA++A + WG D LNCGCPS V GA L+ P L+
Sbjct: 64 LVRIQLLGQYPQWLAENAARAVELGSWGVD---LNCGCPSKTVNGSGGGATLLKDPELIY 120
Query: 104 DCIKAMRDSV--EIDITVKHRIGIDDINSYDFVRDFVGTVSSAGCRTFIVHAR 154
KAMR++V + +TVK R+G D S + + V AG +VH R
Sbjct: 121 QGAKAMREAVPAHLPVTVKVRLGWD---SGERKFEIADAVQQAGATELVVHGR 170
>gnl|CDD|182440 PRK10415, PRK10415, tRNA-dihydrouridine synthase B; Provisional.
Length = 321
Score = 56.1 bits (135), Expect = 5e-09
Identities = 45/181 (24%), Positives = 84/181 (46%), Gaps = 21/181 (11%)
Query: 49 AFQVGDNEPKKLAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKA 108
Q+ ++PK++A +A+I + G I++N GCP+ +V G+ L+ P LV +
Sbjct: 68 TVQIAGSDPKEMADAARINVESGAQIIDINMGCPAKKVNRKLAGSALLQYPDLVKSILTE 127
Query: 109 MRDSVEIDITVKHRIGIDDINSYDFVRDFVGTVSSA---GCRTFIVHARN-AFLKKLNPK 164
+ ++V++ +T+K R G + R+ V A G + +H R A L
Sbjct: 128 VVNAVDVPVTLKIRTGWAPEH-----RNCVEIAQLAEDCGIQALTIHGRTRACLFNGEA- 181
Query: 165 QNRKIPILKYNFVYNLKKDFPELEIIINGGIKTKKEIDLHLNYI--DGVMLGREAYKNPF 222
+Y+ + +K+ + +I NG I + L+Y D +M+GR A P+
Sbjct: 182 --------EYDSIRAVKQKV-SIPVIANGDITDPLKARAVLDYTGADALMIGRAAQGRPW 232
Query: 223 L 223
+
Sbjct: 233 I 233
>gnl|CDD|240091 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 = 33.3 bits (77), Expect = 0.14
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 61 AKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITVK 120
+ A+ + G D I LN CP+ V+ G G T P V++ +KA++ + ++ + VK
Sbjct: 105 VEVAEKLADAGADAIELNISCPN--VKGG--GMAFGTDPEAVAEIVKAVKKATDVPVIVK 160
>gnl|CDD|151502 pfam11056, UvsY, Recombination, repair and ssDNA binding protein
UvsY. UvsY protein enhances the rate of
single-stranded-DNA-dependant ATP hydrolysis by UvsX
protein. The enhancement of ATP hydrolysis by UvsY
protein is shown to result from the ability of UvsY
protein to increase the affinity of UvsX protein for
single-stranded DNA.
Length = 128
Score = 29.2 bits (66), Expect = 1.2
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 207 YIDGVMLGREAYKNPFLMSNFDLNYYSNLPQYKI 240
ID L E+ P L S + L YYS+ + KI
Sbjct: 7 KIDTTKLQTESANIPVLHSKW-LRYYSDAKKEKI 39
>gnl|CDD|239244 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 = 29.9 bits (68), Expect = 1.4
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 64 AKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDITVKHRI 123
AK++++ G D + LN CP + G GA + P LV + + +R++V+I + K
Sbjct: 119 AKLVEEAGADALELNFSCPHGMPERG-MGAAVGQDPELVEEICRWVREAVKIPVIAKLTP 177
Query: 124 GIDDI 128
I DI
Sbjct: 178 NITDI 182
>gnl|CDD|224997 COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy
production and conversion].
Length = 260
Score = 28.8 bits (65), Expect = 3.3
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 57 PKKLAKSAKIIQKWGYDEINLNCGCPSNRVQ 87
P +A K ++KW ++ LN G + ++
Sbjct: 192 PGIMAAKKKPVKKWSLADLGLNVGLAGSPLK 222
>gnl|CDD|219842 pfam08441, Integrin_alpha2, Integrin alpha. This domain is found
in integrin alpha and integrin alpha precursors to the C
terminus of a number of pfam01839 repeats and to the
N-terminus of the pfam00357 cytoplasmic region. This
region is composed of three immunoglobulin-like domains.
Length = 440
Score = 28.9 bits (65), Expect = 3.4
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 6/59 (10%)
Query: 135 RDFVGTVSSAGCRTFIVHARNAFLKKLNPKQNRKIPI-LKYNFVYNLKKDFPELEIIIN 192
+ + CRT + R+ KL P I + L Y+ + PEL+ +++
Sbjct: 85 TLVLLSGGQEVCRTLTAYLRDEVRDKLTP-----IAVELNYSLRPRPASELPELQPVLD 138
>gnl|CDD|236888 PRK11263, PRK11263, cardiolipin synthase 2; Provisional.
Length = 411
Score = 28.8 bits (65), Expect = 3.5
Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 106 IKAMRDSVEIDITVKHRIGIDDINSYDFVRDFVGTVSSAGCR 147
+ A + V++++ V D S D +FV +++AG R
Sbjct: 55 LAAAQRGVKVEVLV------DGYGSPDLSDEFVNELTAAGVR 90
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 28.4 bits (63), Expect = 5.5
Identities = 32/97 (32%), Positives = 45/97 (46%), Gaps = 8/97 (8%)
Query: 169 IPILKYNFVYNLKKDFPELEIIINGGIKTKKEIDLH-LNYIDGVMLGREAYKNPFLMSNF 227
IPI+KY L + P L I + KT EI ++ D V L RE YK L+
Sbjct: 141 IPIVKY-IKRMLMSNIPTL-ITTDAFKKTVFEILFDIISTNDNVYLYREGYKVTILLKWL 198
Query: 228 DLNYYSNLPQYKIPTRIDIIN-----RMILYIRQQLN 259
+ NY + I + IDI N R++LY + +N
Sbjct: 199 EYNYITEEQLLCILSCIDIQNLDKKSRLLLYSNKTIN 235
>gnl|CDD|239201 cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN
binding domain. OYE was the first flavin-dependent
enzyme identified, however its true physiological role
remains elusive to this day. 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.
Members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase.
Length = 327
Score = 28.3 bits (64), Expect = 5.8
Identities = 27/134 (20%), Positives = 46/134 (34%), Gaps = 17/134 (12%)
Query: 101 LVSDCIKAMRDSVEIDITVKHRIGIDDINSYDF----VRDFVGTVSSAGCRTFIVHARNA 156
+ + + A+R++V D V R+ DD + + AG V +
Sbjct: 193 FLLEIVAAVREAVGPDFPVGVRLSADDFVPGGLTLEEAIEIAKALEEAGVDALHVSGGSY 252
Query: 157 FLKKLNPKQNRKIPILKYNFVYNLKK-----DFPELEIIINGGIKTKKEIDLHLN--YID 209
P + + F+ +K P +I GGI+ + + L D
Sbjct: 253 E---SPPPIIPPPYVPEGYFLELAEKIKKAVKIP---VIAVGGIRDPEVAEEILAEGKAD 306
Query: 210 GVMLGREAYKNPFL 223
V LGR +P L
Sbjct: 307 LVALGRALLADPDL 320
>gnl|CDD|183481 PRK12376, PRK12376, putative translaldolase; Provisional.
Length = 236
Score = 27.6 bits (62), Expect = 8.4
Identities = 8/25 (32%), Positives = 15/25 (60%)
Query: 47 PIAFQVGDNEPKKLAKSAKIIQKWG 71
PI+F+V ++ + + K A+ I G
Sbjct: 60 PISFEVFADDLETMEKEAEKIASLG 84
>gnl|CDD|235982 PRK07259, PRK07259, dihydroorotate dehydrogenase 1B; Reviewed.
Length = 301
Score = 27.4 bits (62), Expect = 9.1
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 10/71 (14%)
Query: 58 KKLAKSAKIIQKWGYDEINLNCGCPSNRVQNGFFGAILMTKPLLVSDCIKAMRDSVEIDI 117
+KL+K+ + D I LN CP+ V++G G T P L + +KA+++ V++ +
Sbjct: 111 EKLSKAPNV------DAIELNISCPN--VKHG--GMAFGTDPELAYEVVKAVKEVVKVPV 160
Query: 118 TVKHRIGIDDI 128
VK + DI
Sbjct: 161 IVKLTPNVTDI 171
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
0.324 0.141 0.423
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,066,110
Number of extensions: 1577119
Number of successful extensions: 1481
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1453
Number of HSP's successfully gapped: 62
Length of query: 311
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 214
Effective length of database: 6,635,264
Effective search space: 1419946496
Effective search space used: 1419946496
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (26.7 bits)