RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy144
(254 letters)
>gnl|CDD|239058 cd02144, iodotyrosine_dehalogenase, Iodotyrosine dehalogenase
catalyzes the removal of iodine from the 3, 5 positions
of L-tyosine in thyroid, liver and kidney, using NADPH
as electron donor. This enzyme is a homolog of the
nitroreductase family. These enzymes are usually
homodimers.
Length = 193
Score = 309 bits (794), Expect = e-108
Identities = 122/193 (63%), Positives = 156/193 (80%)
Query: 58 FYQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDI 117
FY+LM RR+VR FSDE VP+E+I N I+TAGT+PSGA+T+PWTFV+V D ++K +IR+I
Sbjct: 1 FYELMKRRRSVRKFSDEPVPREVIENCIRTAGTAPSGANTQPWTFVVVSDPELKHRIREI 60
Query: 118 VESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYY 177
E EERINY+ RMGKEW DL+PL T+W+K YL APYL++VFKQ YG +GK++ HYY
Sbjct: 61 AEEEERINYEGRMGKEWVWDLKPLGTNWRKPYLDEAPYLILVFKQKYGGLPDGKKRTHYY 120
Query: 178 HEMSVSLACGIMLAAIQYCGLVTLTSTPLNAGPALRTLLDRPGNEKLALLLPIGYPALDC 237
+E SVS+ACG++LAA+Q GL T+T+TPLN GP LR LL RP NEKL +LLP+GYP D
Sbjct: 121 NEESVSIACGLLLAALQNAGLGTVTTTPLNMGPFLRRLLGRPANEKLLMLLPVGYPDDDA 180
Query: 238 TVPNLKRKDIEDI 250
TVP+LKRK +E+I
Sbjct: 181 TVPDLKRKPLEEI 193
>gnl|CDD|216169 pfam00881, Nitroreductase, Nitroreductase family. The
nitroreductase family comprises a group of FMN- or
FAD-dependent and NAD(P)H-dependent enzymes able to
metabolize nitrosubstituted compounds.
Length = 163
Score = 106 bits (267), Expect = 7e-29
Identities = 45/171 (26%), Positives = 78/171 (45%), Gaps = 8/171 (4%)
Query: 62 MNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVESE 121
+ RR++R F DE VP E + I++ A +PS + +PW F +V DK+++ K+ ++
Sbjct: 1 IKKRRSIRKFDDEPVPDEDLEKILEAARRAPSAGNLQPWRFYVVTDKELRYKLAKLLAEL 60
Query: 122 ERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYYHEMS 181
++ L L + L AP L+VV + G++ Y +
Sbjct: 61 LPE-------EDAPALLLVLADLGNQPLLADAPVLIVVRSDRAARAKSGEKAYRYAL-LD 112
Query: 182 VSLACGIMLAAIQYCGLVTLTSTPLNAGPALRTLLDRPGNEKLALLLPIGY 232
LA +L A GL + +A +R LL P +E++ L+ +GY
Sbjct: 113 AGLAAQNLLLAATALGLGSCWIGGFDAAAEVRELLGLPEDEEIVGLIAVGY 163
>gnl|CDD|239054 cd02139, Nitroreductase_3, Nitroreductase-like family 3. A
subfamily of the nitroreductase family containing
uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 164
Score = 91.6 bits (228), Expect = 5e-23
Identities = 53/197 (26%), Positives = 88/197 (44%), Gaps = 36/197 (18%)
Query: 58 FYQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDI 117
F L+ RR+VR + D+ V +E + I++ A +PS + +PW F++VE ++ K+
Sbjct: 1 FLDLIKKRRSVRKYKDDPVEEEKLERILEAARLAPSAKNLQPWRFIVVESEEGLKKLA-- 58
Query: 118 VESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYY 177
++ +++L TAP ++VV E RK
Sbjct: 59 -------------------------AAYARKWLQTAPVVIVV---CGDKNEAWVRKIDGK 90
Query: 178 HEMSVSLACG---IMLAAIQYCGLVTLTSTPLNAGPALRTLLDRPGNEKLALLLPIGYPA 234
+ LA +MLAA GL T ++ LD P NE++ +LP+GYPA
Sbjct: 91 NSYETDLAIAMEHMMLAA-AELGLGT-CWIGAFDEDEIKEALDIPENEEVVAILPLGYPA 148
Query: 235 LDCTVPNLKRKDIEDII 251
D P RK +++I+
Sbjct: 149 EDPKRPK-TRKPLDEIV 164
>gnl|CDD|239063 cd02150, NADPH_oxidoreductase_1, NAD(P)H:flavin oxidoreductase-like
family 1. A subfamily of the nitroreductase family
containing uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 166
Score = 83.5 bits (207), Expect = 6e-20
Identities = 52/196 (26%), Positives = 78/196 (39%), Gaps = 43/196 (21%)
Query: 64 ARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVESEER 123
RR+VR ++DE V E+I I++ A +PS + +PW FV+V D++ K+ +
Sbjct: 6 TRRSVRKYTDEPVSDELIEKILRAAMAAPSAGNQQPWRFVVVRDRETLDKLAADLP---- 61
Query: 124 INYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYYHEMSV- 182
Y L AP +VV + Y M V
Sbjct: 62 --YAG--------------------MLREAPVAIVVC---------LDPEAEYERTMWVQ 90
Query: 183 SLACGI--MLAAIQYCGL--VTLTSTPLNAGPA-LRTLLDRPGNEKLALLLPIGYPALDC 237
A + +L A GL V L P +R LL P N + ++PIGYPA +
Sbjct: 91 DCAAAVQNILLAAHALGLGAVWLGVYPFEERVEKVRELLGLPENVEPMAVIPIGYPAEEP 150
Query: 238 TVPNLKRKDIEDIIVE 253
P+ R+ + I E
Sbjct: 151 GPPD--RRPPKRIHYE 164
>gnl|CDD|239015 cd02062, Nitro_FMN_reductase, Proteins of this family catalyze the
reduction of flavin or nitrocompounds using NAD(P)H as
electron donor in a obligatory two-electron transfer,
utilizing FMN or FAD as cofactor. They are often found
to be homodimers. Enzymes of this family are described
as NAD(P)H:FMN oxidoreductases, oxygen-insensitive
nitroreductase, flavin reductase P, dihydropteridine
reductase, NADH oxidase or NADH dehydrogenase.
Length = 122
Score = 78.4 bits (194), Expect = 2e-18
Identities = 40/173 (23%), Positives = 64/173 (36%), Gaps = 53/173 (30%)
Query: 62 MNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVESE 121
+ RR+VR F+DE VP+E++ I++ A +PSG + +PW FV+V
Sbjct: 1 ILKRRSVRKFTDEPVPEEVLEKILEAARYAPSGGNLQPWRFVVVYG-------------- 46
Query: 122 ERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYYHEMS 181
AP L++V + G + E
Sbjct: 47 -------------------------------APVLIIVCADKDAARPSG-----PWAEAD 70
Query: 182 VSLACG-IMLAAIQYCGLVT-LTSTPLNAGPALRTLLDRPGNEKLALLLPIGY 232
+A I+LAA GL + LR LL P ++ ++ +GY
Sbjct: 71 AGIAAQNILLAAHAL-GLGSCWIGGLDLVEEELRELLGIPEGYEILAVIAVGY 122
>gnl|CDD|223849 COG0778, NfnB, Nitroreductase [Energy production and conversion].
Length = 207
Score = 77.7 bits (191), Expect = 2e-17
Identities = 47/202 (23%), Positives = 88/202 (43%), Gaps = 8/202 (3%)
Query: 56 EEFYQLMNARRTVR-FFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDK-DMKAK 113
+ + + +RR++R F S + +P+E + I++ A +PS + +PW F++V D+ ++KA
Sbjct: 3 MDILEAIRSRRSIRKFDSPKPIPEEDLEKILEAARLAPSAGNLQPWRFIVVRDEDELKAA 62
Query: 114 IRDIVESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRK 173
+ ++ + + DL + V + + G+R
Sbjct: 63 LAELAGGGQAQLKEASALLAVLADLE-SLDKVAEGRAPDLGAAVFLLAERRKLLGYGRRA 121
Query: 174 KHYYHEMSVSLACG-IMLAAIQYCGLVTLTSTPLNAGP---ALRTLLDRPGNEKLALLLP 229
Y + S+A ++LAA GL + +A LR LL P EK LL
Sbjct: 122 ALEYALDAASIAAQNLLLAAEAL-GLGSCWIGGFDAEDLKELLRELLGLPEEEKPVGLLA 180
Query: 230 IGYPALDCTVPNLKRKDIEDII 251
+GYPA + R +E+++
Sbjct: 181 LGYPAEEPPPRLKPRLPLEEVV 202
>gnl|CDD|239059 cd02145, BluB, Subfamily of the nitroreductase family that includes
BluB protein in Rhodobacter capsulatus is involved in
the conversion of cobinamide to cobalamin in Cobalamin
(vitamin B12) biosynthesis. Nitroreductases typically
reduce their substrates by using NAD(P)H as electron
donor and often use FMN as a cofactor.
Length = 196
Score = 67.6 bits (166), Expect = 8e-14
Identities = 52/198 (26%), Positives = 79/198 (39%), Gaps = 26/198 (13%)
Query: 59 YQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIV 118
Y+ + RR VR F + VP+E++ ++ A +PS ++PW F+ V D +A I+ +
Sbjct: 1 YRAIRWRRDVRHFFPDPVPEEVLERLLAAAHHAPSVGLSQPWRFIRVRDPATRAAIKALF 60
Query: 119 ESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYYH 178
E EER + E + LK E + AP + VF +
Sbjct: 61 E-EERAEAAEAYPGERAAEYARLKL----EGILEAPVNLAVFCDRDRAGGHVLGRAT-MP 114
Query: 179 EM---SVSLACGIM-LAAIQYCGLVTLTSTPLNAG-------PALRTLLDRPGNEKLALL 227
EM SV A + LAA + L G AL LL P + +
Sbjct: 115 EMDLYSVVCAIQNLWLAA---------RAEGLGVGWVSILDPEALARLLGIPEDWEPVAY 165
Query: 228 LPIGYPALDCTVPNLKRK 245
L +GY + P L+R
Sbjct: 166 LCLGYVSEFPDTPELERA 183
>gnl|CDD|239052 cd02137, Nitroreductase_1, Nitroreductase-like family 1. A
subfamily of the nitroreductase family containing
uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 148
Score = 64.9 bits (159), Expect = 3e-13
Identities = 44/193 (22%), Positives = 78/193 (40%), Gaps = 48/193 (24%)
Query: 60 QLMNARRTVRFFSDEA-VPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIV 118
++ +RR+VR F +A +P+E + I++ A +PS + +PW FV+V D + KAK+ +
Sbjct: 2 DVIESRRSVRNFDPDAKIPREELKEILELATLAPSSFNLQPWRFVVVRDPEKKAKLAEAA 61
Query: 119 ESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYYH 178
+ +TTA +++V
Sbjct: 62 --------------------------MNQPQVTTASAVILVLGDL--------------- 80
Query: 179 EMSVSLAC-GIMLAAIQYCGLVTLTSTPLNAGPALRTLLDRPGNEKLALLLPIGYPALDC 237
+ LA +MLAA Y G T +A + LL+ P +L+ IG A +
Sbjct: 81 --NAGLAAMNLMLAARAY-GYDTCPMGGFDA-EKVAELLNLPARYVPVMLIAIGKAAEE- 135
Query: 238 TVPNLKRKDIEDI 250
P R ++++
Sbjct: 136 EGPPSYRLPVDEV 148
>gnl|CDD|239050 cd02135, Arsenite_oxidase, Nitroreductase-like family which
includes NADH oxidase and arsenite oxidiase. NADH
oxidase catalyses the oxidation of NAD(P)H and accepts a
wide broad range of compounds as electron acceptors,
such as nitrocompound. Arsenite oxidase in a
beta-proteobacterial strain is able to oxidize arsenite
to arsenate.
Length = 160
Score = 64.9 bits (159), Expect = 4e-13
Identities = 34/179 (18%), Positives = 67/179 (37%), Gaps = 26/179 (14%)
Query: 60 QLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVE 119
L+ RR+++ + A +E + I++ A +P EPW F+++ + + + E
Sbjct: 2 DLLLTRRSIKKLTLPAPDREQLEQILEAAARAPDHGKLEPWRFIVIRGEARERLAELLAE 61
Query: 120 SEERIN--YDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYY 177
+ R ++++ K +E AP ++ V + + K +
Sbjct: 62 AAAREPGAPEEQIEKA-------------REKALRAPLVIAVVAKP---QPHPKVPE--- 102
Query: 178 HEMSVSLACGIM---LAAIQYCGLVT-LTSTPLNAGPALRTLLDRPGNEKLALLLPIGY 232
E ++ I LAA G + PA+R L E++ L IG
Sbjct: 103 WEQLLAAGAAIQNLLLAAHAL-GFGAVWRTGWAAYDPAVREALGLAEGERIVGFLYIGT 160
>gnl|CDD|162875 TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase. A previously
published hypothesis that BluB, involved in cobalamin
biosynthesis, is EC 1.16.8.1 (cob(II)yrinic acid
a,c-diamide reductase) is now contradicted by newer work
ascribing a role in 5,6-dimethylbenzimidazole (DMB)
biosynthesis. The BluB protein is related to the
nitroreductase family (pfam0881) [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 205
Score = 62.8 bits (153), Expect = 5e-12
Identities = 48/202 (23%), Positives = 77/202 (38%), Gaps = 28/202 (13%)
Query: 56 EEFYQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIR 115
Y+L+ RR VR F + VP+ ++ ++ A +PS ++PW FV VE + +
Sbjct: 7 AAVYRLIRERRDVRHFRSDPVPEAVLERLLDAAHHAPSVGFSQPWRFVRVESPATREAVH 66
Query: 116 DIVESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKH 175
+ E + LK E + AP + VF + + H
Sbjct: 67 ALFT-RANQAAAAIYDGERASQYHRLKL----EGIREAPVQLAVFCDD------ARGEGH 115
Query: 176 YY--HEM------SVSLACGIMLAAIQYCGL----VTLTSTPLNAGPALRTLLDRPGNEK 223
H M SV+ A + A + GL V++ A+R LL P +
Sbjct: 116 GLGRHTMPEMLRYSVACAIQNLWLAARAEGLGVGWVSILDPD-----AVRRLLGVPEGWR 170
Query: 224 LALLLPIGYPALDCTVPNLKRK 245
L L +G+P P L+R
Sbjct: 171 LVAYLCLGWPDAFYDEPELERA 192
>gnl|CDD|239051 cd02136, Nitroreductase, Nitroreductase family. Members of this
family utilize FMN as a cofactor and catalyze reduction
of a variety of nitroaromatic compounds, including
nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate
and quinones by using either NADH or NADPH as a source
of reducing equivalents in an obligatory two-election
transfer mechanism. The enzyme is typically a
homodimer. Members of this family are also called NADH
dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or
dihydropteridine reductase.
Length = 178
Score = 61.0 bits (149), Expect = 2e-11
Identities = 46/202 (22%), Positives = 73/202 (36%), Gaps = 34/202 (16%)
Query: 58 FYQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDI 117
+ + +R +VR F + VP+E I I+ A +PSG +T+PW +V + ++R +
Sbjct: 1 VDEAIKSRHSVRAFLPDPVPRETIEEILAAAQRAPSGCNTQPWQVYVVTG-EALDRLRQL 59
Query: 118 VESEERINYDKRMGKEWTTDLRPLKTSWQKEY-LTTAPYLVVVFKQTYGFKEEGKRKKHY 176
+ +G D + + AP +
Sbjct: 60 YGA---------LGIAR-EDKAGRARQALRNFRFFGAPVGLFFT-------------IDR 96
Query: 177 YHEMSVSLACG-----IMLAAIQYCGLVTLTSTPLNAGPA-LRTLLDRPGNEKLALLLPI 230
+L G IMLAA GL T L P +R L P +E L + +
Sbjct: 97 RLGPGSALDLGMFLQTIMLAARAR-GLDTCPQAALAKYPDIVREELGIPDDEMLVCGIAL 155
Query: 231 GYPALDCTVPNL--KRKDIEDI 250
GY D V N R +E+
Sbjct: 156 GYADPDAPVNNYRTPRAPLEEF 177
>gnl|CDD|183957 PRK13294, PRK13294, F420-0--gamma-glutamyl ligase; Provisional.
Length = 448
Score = 62.7 bits (153), Expect = 3e-11
Identities = 31/105 (29%), Positives = 44/105 (41%), Gaps = 20/105 (19%)
Query: 64 ARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVESEER 123
RR+VR FSD+ V E + + A T+P+ HT P FV + ++ ++ D
Sbjct: 259 LRRSVREFSDDPVDPEAVRRAVAAALTAPAPHHTRPVRFVWLRSAAVRTRLLD------- 311
Query: 124 INYDKRMGKEWTTDLRPLKTSWQK--------EYLTTAPYLVVVF 160
M W DLR S + + L AP LVV F
Sbjct: 312 -----AMRDAWRADLRADGLSEESIARRVRRGDILYDAPELVVPF 351
>gnl|CDD|132592 TIGR03553, F420_FbiB_CTERM, F420 biosynthesis protein FbiB,
C-terminal domain. Coenzyme F420 differs between the
Archaea and the Actinobacteria, where the numbers of
glutamate residues attached are 2 (Archaea) or 5-6
(Mycobacterium). The enzyme in the Archaea is homologous
to the N-terminal domain of FbiB from Mycobacterium
bovis, and is responsible for glutamate ligation.
Therefore it seems likely that the C-terminal domain of
FbiB, modeled by This model, is involved in additional
glutamate ligation [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 194
Score = 59.0 bits (143), Expect = 1e-10
Identities = 32/109 (29%), Positives = 46/109 (42%), Gaps = 20/109 (18%)
Query: 60 QLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVE 119
Q + RR+VR FSD+ V + + + A T+P+ HT P FV VED + + ++ D
Sbjct: 1 QAVLLRRSVRRFSDDPVDPDAVRAAVAAALTAPAPHHTRPVRFVWVEDAERRTRLLD--- 57
Query: 120 SEERINYDKRMGKEWTTDLRPLKTSWQK--------EYLTTAPYLVVVF 160
M W DLR S + L AP LV+
Sbjct: 58 ---------AMADAWRADLRADGLSADAIDRRVARGDILRDAPELVIPC 97
>gnl|CDD|239060 cd02146, NfsA_FRP, This family contains NADPH-dependent flavin
reductase and oxygen-insensitive nitroreductase. These
enzymes are homodimeric flavoproteins that contain one
FMN per monomer as a cofactor. Flavin reductase
catalyzes the reduction of flavin by using NADPH as an
electron donor. Oxygen-insensitive nitroreductase, such
as NfsA protein in Escherichia coli, catalyzes reduction
of nitrocompounds using NADPH as electron donor.
Length = 229
Score = 59.5 bits (145), Expect = 1e-10
Identities = 15/67 (22%), Positives = 39/67 (58%)
Query: 59 YQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIV 118
+ + R++R F DE +P E + +I A ++P+ ++ + ++ ++V D ++KAK+ ++
Sbjct: 2 IETLLNHRSIRKFKDEPIPDETLETLIAAAQSAPTSSNLQAYSVIVVTDPELKAKLAELA 61
Query: 119 ESEERIN 125
+ +
Sbjct: 62 GGQPYVA 68
>gnl|CDD|239467 cd03370, NADH_oxidase, NADPH_oxidase. Nitroreductase family
containing NADH oxidase and other, uncharacterized
proteins that are similar to nitroreductase.
Nitroreductase catalyzes the reduction of nitroaromatic
compounds such as nitrotoluenes, nitrofurans and
nitroimidazoles. This process requires NAD(P)H as
electron donor in an obligatory two-electron transfer
and uses FMN as cofactor. The enzyme is typically a
homodimer. Members of this family are also called NADH
dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or
dihydropteridine reductase.
Length = 156
Score = 57.0 bits (138), Expect = 3e-10
Identities = 37/171 (21%), Positives = 72/171 (42%), Gaps = 36/171 (21%)
Query: 65 RRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIVESEERI 124
RR++R F + +P++++ +++ A +PS + +PW V+V+D K +
Sbjct: 8 RRSIRQFDTDPIPEDLLRRLLEAALRAPSAFNLQPWRIVVVQDPAQKEALFA-------- 59
Query: 125 NYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYYHEMSVSL 184
+ + + AP VV Y ++ EG ++ +
Sbjct: 60 ------------------AALGQPQVLEAPVTVVFVADDYAWRAEGLKQ--------AMI 93
Query: 185 ACGIMLAAIQYCGLVTLTSTPLNAGPALRTLLDRPGNEKL-ALLLPIGYPA 234
A G +L A GL T T + ++ L PG ++ A+++ +GYPA
Sbjct: 94 AAGFLLLAATALGLATSPMTGFDEE-KVKEALGLPGRDRAIAVVVAVGYPA 143
>gnl|CDD|239062 cd02149, NfsB_like_nitroreductase, NAD(P)H:FMN oxidoreductase
family. This domain catalyzes the reduction of flavin,
nitrocompound, quinones and azo compounds using NADH or
NADPH as an electron donor. The enzyme is a homodimer,
and each monomer binds a FMN as co-factor. This family
includes FRase I in Vibrio fischeri, wihich reduces FMN
into FMNH2 as part of the bioluminescent reaction. The
family also includes oxygen-insensitive nitroreductases
that use NADH or NADPH as an electron donor in the ping
pong bi bi mechanism. This type of nitroreductase can be
used in cancer chemotherapy to activate a range of
prodrugs.
Length = 157
Score = 56.4 bits (137), Expect = 4e-10
Identities = 38/202 (18%), Positives = 73/202 (36%), Gaps = 59/202 (29%)
Query: 60 QLMNARRTVRFFSDE-AVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDIV 118
+L+N R + F + E + I++ SPS +PW F++VE++++KA++
Sbjct: 4 ELLNFRYATKAFDPSKKISDEDLEEILEALRLSPSSFGLQPWKFLVVENEELKARLAPA- 62
Query: 119 ESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVF-------KQTYGFKEEGK 171
+ + +T A +LVV KQ Y
Sbjct: 63 ------------------------AWFNQPQVTDASHLVVFLARTDWAAKQAY------- 91
Query: 172 RKKHYYHEMSVSLACGIMLAAIQYCGLVTLTSTPL---NAGPALRTLLDRPGNEKLALLL 228
+A G ML A G + S P+ + L ++++
Sbjct: 92 ------------IALGNMLLAAASLG---IDSCPIEGFDPAKLDEILGLDEKGYGSSVMV 136
Query: 229 PIGYPALDCTVPNLKRKDIEDI 250
+GY + + +P R +E++
Sbjct: 137 ALGYRSEEAKLPKS-RLPLEEV 157
>gnl|CDD|239064 cd02151, NADPH_oxidoreductase_2, NAD(P)H:flavin oxidoreductase-like
family 2. A subfamily of the nitroreductase family
containing uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 162
Score = 55.8 bits (135), Expect = 9e-10
Identities = 45/186 (24%), Positives = 73/186 (39%), Gaps = 44/186 (23%)
Query: 58 FYQLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIRDI 117
F +L+ RR++R F+DE V KE + ++K A +PS + PW F++V D++ +
Sbjct: 1 FIELLKKRRSIRKFTDEPVEKEKVDALLKAALRAPSSRNRRPWEFIVVTDREKLQALSQA 60
Query: 118 VESEERINYDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEEGKRKKHYY 177
K G +L A +VV RK +
Sbjct: 61 ----------KEHG---------------SRFLAGAALAIVVV--------ADPRKSDVW 87
Query: 178 HEMSVSLACGIMLAA---------IQYCGLVTLTSTPLNAGPALRTLLDRPGNEKLALLL 228
E + A I L A +Q G + A +R LL+ P + ++ ++
Sbjct: 88 IEDASIAAIIIQLTAQDLGLGSCWVQIRGRMHDDGKT--AEEYVRRLLNIPEHLRVLCII 145
Query: 229 PIGYPA 234
IGYPA
Sbjct: 146 AIGYPA 151
>gnl|CDD|239057 cd02143, NADH_nitroreductase, Nitroreductase family. Members of
this family utilize FMN as a cofactor. This family is
involved in the reduction of flavin or nitroaromatic
compounds by using NAD(P)H as electron donor in a
obligatory two-electron transfer. Nitrogenase is
homodimer. Each subunit contains one FMN molecule.
Members of this family are also called NADH
dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or
dihydropteridine reductase.
Length = 147
Score = 51.9 bits (125), Expect = 2e-08
Identities = 17/48 (35%), Positives = 31/48 (64%)
Query: 61 LMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDK 108
L+ RR+VR + E VP+E I ++ A +P+G++++P F +V+D
Sbjct: 1 LLRGRRSVRHYRPEPVPRETIERLLDIARYAPTGSNSQPVHFTVVDDP 48
>gnl|CDD|239053 cd02138, Nitroreductase_2, Nitroreductase-like family 2. A
subfamily of the nitroreductase family containing
uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 181
Score = 36.1 bits (84), Expect = 0.007
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 61 LMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKD 109
L+ R + R F E VP+E + ++++ A +PS + +PW FV
Sbjct: 8 LILNRWSPRAFDGEPVPREDLLSLLEAARWAPSAYNDQPWRFVYARRGT 56
>gnl|CDD|239061 cd02148, Nitroreductase_5, Nitroreductase-like family 5. A
subfamily of the nitroreductase family containing
uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 185
Score = 34.6 bits (80), Expect = 0.021
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 60 QLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIR 115
QL RT F+DE V E + I P+ A+++P FV V + K ++
Sbjct: 4 QLFTEARTANGFTDEPVSDEQLRAIYDLVKWGPTAANSQPARFVFVRSAEAKERLV 59
>gnl|CDD|184854 PRK14852, PRK14852, hypothetical protein; Provisional.
Length = 989
Score = 32.0 bits (72), Expect = 0.30
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 74 EAVPKEIIHNIIKTAGTSPSGAHTEPWTFV 103
+ +P E +H + + A +PSG + +PW FV
Sbjct: 609 QDIPLETLHYVARAAMQAPSGDNVQPWRFV 638
>gnl|CDD|180040 PRK05365, PRK05365, malonic semialdehyde reductase; Provisional.
Length = 195
Score = 31.3 bits (72), Expect = 0.31
Identities = 16/56 (28%), Positives = 24/56 (42%)
Query: 60 QLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIR 115
QL RT + DE V E + + P+ A+ P FV V + K ++R
Sbjct: 11 QLFTEARTHNGWLDEPVSDEQLRELYDLVKWGPTSANCSPARFVFVRSAEAKERLR 66
>gnl|CDD|182710 PRK10765, PRK10765, nitroreductase A; Provisional.
Length = 240
Score = 31.1 bits (71), Expect = 0.39
Identities = 12/56 (21%), Positives = 29/56 (51%)
Query: 60 QLMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKIR 115
+L+ + R++R F+DE + + II A + S + + + + + DK ++ +
Sbjct: 6 ELILSHRSIRHFTDEPISEAQREAIINAARAASSSSFLQCSSIIRITDKALREALV 61
>gnl|CDD|218368 pfam04992, RNA_pol_Rpb1_6, RNA polymerase Rpb1, domain 6. RNA
polymerases catalyze the DNA dependent polymerisation of
RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). This
domain, domain 6, represents a mobile module of the RNA
polymerase. Domain 6 forms part of the shelf module.
This family appears to be specific to the largest
subunit of RNA polymerase II.
Length = 187
Score = 30.9 bits (71), Expect = 0.40
Identities = 21/81 (25%), Positives = 28/81 (34%), Gaps = 12/81 (14%)
Query: 22 TDEDDEFAPALPEALDHISYDFVKKSVEDIRQRSEEFYQLMNARRTVRFF----SDEAVP 77
D D+ F LP LD + E + EE+ QL+ RR +R D P
Sbjct: 30 MDPDEGF---LPGVLDEDVVKELLGDAEVQKLLDEEYEQLLEDRRLLREEIFPDGDSKWP 86
Query: 78 -----KEIIHNIIKTAGTSPS 93
+ II N K
Sbjct: 87 LPVNLQRIIWNAQKIFHIDRR 107
>gnl|CDD|184853 PRK14851, PRK14851, hypothetical protein; Provisional.
Length = 679
Score = 31.4 bits (71), Expect = 0.53
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 73 DEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDK 108
+++P+ + I++ +PSG + +PW F + +
Sbjct: 320 FDSLPQGVGDYILQAGIQAPSGDNVQPWQFALAGND 355
>gnl|CDD|182929 PRK11053, PRK11053, dihydropteridine reductase; Provisional.
Length = 217
Score = 29.6 bits (67), Expect = 1.3
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 60 QLMNARRTVRFF-SDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVEDKDMKAKI 114
+ R T + F + +P E I I SPS +++PW F++ ++ KA+I
Sbjct: 5 SVAKKRYTTKAFDPSKKLPAEQIEQIKTLLRFSPSSVNSQPWHFIVASTEEGKARI 60
>gnl|CDD|119432 cd05172, PIKKc_DNA-PK, DNA-dependent protein kinase (DNA-PK),
catalytic domain; The DNA-PK catalytic domain subfamily
is part of a larger superfamily that includes the
catalytic domains of other kinases such as the typical
serine/threonine/tyrosine protein kinases (PKs),
aminoglycoside phosphotransferase, choline kinase, and
RIO kinases. DNA-PK is a member of the phosphoinositide
3-kinase-related protein kinase (PIKK) subfamily. PIKKs
have intrinsic serine/threonine kinase activity and are
distinguished from other PKs by their unique catalytic
domain, similar to that of lipid PI3K, and their large
molecular weight (240-470 kDa). DNA-PK is comprised of
a regulatory subunit, containing the Ku70/80 subunit,
and a catalytic subunit, which contains a NUC194 domain
of unknown function, a FAT (FRAP, ATM and TRRAP)
domain, a catalytic domain, and a FATC domain at the
C-terminus. It is part of a multi-component system
involved in non-homologous end joining (NHEJ), a
process of repairing double strand breaks (DSBs) by
joining together two free DNA ends of little homology.
DNA-PK functions as a molecular sensor for DNA damage
that enhances the signal via phosphorylation of
downstream targets. It may also act as a protein
scaffold that aids the localization of DNA repair
proteins to the site of DNA damage. DNA-PK also plays a
role in the maintenance of telomeric stability and the
prevention of chromosomal end fusion.
Length = 235
Score = 29.6 bits (67), Expect = 1.4
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 37 DHISYDFVKKSVEDIR--QRSEEFYQLMN 63
D Y F+ K ED+R QR ++ + +MN
Sbjct: 26 DEKEYPFLVKGGEDLRQDQRIQQLFGVMN 54
>gnl|CDD|236122 PRK07877, PRK07877, hypothetical protein; Provisional.
Length = 722
Score = 30.0 bits (68), Expect = 1.5
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 72 SDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFV 103
+ EA+P++ + + A +PSG + +PW
Sbjct: 368 AAEALPQDALEIVAAAAIRAPSGGNVQPWHIE 399
>gnl|CDD|218676 pfam05649, Peptidase_M13_N, Peptidase family M13. M13 peptidases
are well-studied proteases found in a wide range of
organisms including mammals and bacteria. In mammals
they participate in processes such as cardiovascular
development, blood-pressure regulation, nervous control
of respiration, and regulation of the function of
neuropeptides in the central nervous system. In bacteria
they may be used for digestion of milk.
Length = 380
Score = 29.2 bits (66), Expect = 2.0
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 13/75 (17%)
Query: 26 DEFAPALPEALDHISYDFVKKS---VEDIRQRSEEFYQLMNA-------RRTVR-FFSDE 74
D FAP L E +++F K+ ++ R R + L+N R V +F E
Sbjct: 273 DSFAPYLSEEFRDANFEFYGKTLSGTKEQRPRWKRCVSLVNGLLGEALGRLYVEKYFPPE 332
Query: 75 AVPK--EIIHNIIKT 87
A E++ NI K
Sbjct: 333 AKADVEEMVKNIKKA 347
>gnl|CDD|236134 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated.
Length = 394
Score = 28.3 bits (64), Expect = 4.2
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 84 IIKTAGTSPSGAHTEPWTFVIVEDKD 109
++ A PS W V++ED D
Sbjct: 105 LVTIAARRPSTG---RWRIVVIEDAD 127
>gnl|CDD|217914 pfam04129, Vps52, Vps52 / Sac2 family. Vps52 complexes with Vps53
and Vps54 to form a multi- subunit complex involved in
regulating membrane trafficking events.
Length = 511
Score = 28.2 bits (63), Expect = 4.5
Identities = 17/63 (26%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 36 LDHISYDFVKKSVEDIRQRSEEFYQLMNARRTVR-----FFSDEAVPKEIIHNIIKTAGT 90
L IS D ++ ++++S E + R+ V F D VP E+I II
Sbjct: 44 LSSISQD-----IKFLQEKSNEMQLRLENRQAVESKLSQFVDDLIVPPELIDTIIDGDVN 98
Query: 91 SPS 93
P
Sbjct: 99 EPF 101
>gnl|CDD|219556 pfam07757, AdoMet_MTase, Predicted AdoMet-dependent
methyltransferase. Proteins in this family have been
predicted to function as AdoMet-dependent
methyltransferases.
Length = 112
Score = 26.8 bits (59), Expect = 6.0
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 126 YDKRMGKEWTTDLRPLKTSWQKEYLTTAPYLVVVFKQTYGFKEE 169
Y + + W P K + E L A YL+++++QT +
Sbjct: 18 YGQSLVSIWPECTDPQKFVF--EDLAIAAYLIMLWRQTRSAESL 59
>gnl|CDD|236636 PRK09950, PRK09950, putative transporter; Provisional.
Length = 506
Score = 27.4 bits (61), Expect = 7.3
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 150 LTTAPYLVVVFKQTYGFK 167
LT P+LV++ + YGF
Sbjct: 476 LTALPFLVILLIKVYGFI 493
>gnl|CDD|182761 PRK10828, PRK10828, putative oxidoreductase; Provisional.
Length = 183
Score = 27.0 bits (60), Expect = 7.9
Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 61 LMNARRTVRFFSDEAVPKEIIHNIIKTAGTSPSGAHTEPWTFVIVED 107
L+N RR+ ++ A E + NI++ +P +PW F ++E
Sbjct: 7 LLN-RRSASRLAEPAPTGEQLQNILRAGMRAPDHGSLQPWRFFVIEG 52
>gnl|CDD|176890 cd08881, RHO_alpha_C_NDO-like, C-terminal catalytic domain of the
oxygenase alpha subunit of naphthalene 1,2-dioxygenase
(NDO) and related aromatic ring hydroxylating
dioxygenases. C-terminal catalytic domain of the
oxygenase alpha subunit of naphthalene 1,2-dioxygenase
(NDO) and related Rieske-type non-heme iron aromatic
ring-hydroxylating oxygenases (RHOs, also known as
aromatic ring hydroxylating dioxygenases). This domain
binds non-heme Fe(II). RHOs utilize non-heme Fe(II) to
catalyze the addition of hydroxyl groups to the aromatic
ring, an initial step in the oxidative degradation of
aromatic compounds. RHOs are composed of either two or
three protein components, and are comprised of an
electron transport chain (ETC) and an oxygenase. The ETC
transfers reducing equivalents form the electron donor
to the oxygenase component, which in turn transfers
electrons to the oxygen molecules. The oxygenase
components are oligomers, either (alpha)n or
(alpha)n(beta)n. The alpha subunits are the catalytic
components and have an N-terminal domain, which binds a
Rieske-like 2Fe-2S cluster, and a C-terminal domain
which binds the non-heme Fe(II). The Fe(II) is
co-ordinated by conserved His and Asp residues. Proteins
belonging to this subgroup include the terminal
oxygenase alpha subunits of biphenyl dioxygenase, cumene
dioxygenase from Pseudomonas fluorescens IP01,
ethylbenzene dioxygenase, naphthalene 1,2-dioxygenase,
nitrobenzene dioxygenase from Comamonas sp. strain
JS765, toluene 2,3-dioxygenase from Pseudomonas putida
F1, dioxin dioxygenase of Sphingomonas sp. Strain RW1,
and the polycyclic aromatic hydrocarbons (PAHs)degrading
ring-hydroxylating dioxygenase from Sphingomonas CHY-1.
This subfamily belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket.
Length = 206
Score = 26.8 bits (60), Expect = 9.2
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 92 PSGAH-TEPWTFVIVEDKDMKAKIRDIV 118
P G TE WT+ +V DKD +++D V
Sbjct: 99 PRGPDETEVWTWTLV-DKDAPEEVKDRV 125
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.134 0.394
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,337,848
Number of extensions: 1277053
Number of successful extensions: 1320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1313
Number of HSP's successfully gapped: 52
Length of query: 254
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 159
Effective length of database: 6,723,972
Effective search space: 1069111548
Effective search space used: 1069111548
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 (21.6 bits)
S2: 58 (26.1 bits)