RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy581
(343 letters)
>gnl|CDD|215141 PLN02252, PLN02252, nitrate reductase [NADPH].
Length = 888
Score = 354 bits (911), Expect = e-115
Identities = 138/301 (45%), Positives = 191/301 (63%), Gaps = 41/301 (13%)
Query: 44 LVDPDVKVPLKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYT 103
++P K+P +L EKI ++HD R FRF LPS +HVLGLP+G+H+ L ATIN + RAYT
Sbjct: 628 ALNPREKIPCRLVEKISLSHDVRLFRFALPSEDHVLGLPVGKHVFLCATINGKLCMRAYT 687
Query: 104 PVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNG 163
P +SD+ G+ +LV+KVYFKNVHPKFP+GG MSQ+L+++ +G+ I+V GP G + Y G G
Sbjct: 688 PTSSDDEVGHFELVIKVYFKNVHPKFPNGGLMSQYLDSLPIGDTIDVKGPLGHIEYAGRG 747
Query: 164 EFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEK 223
F V+ K +L+M+AGGTGITPM Q+++ I +DP D T+MSL++AN++E
Sbjct: 748 SF---LVNGKPKF----AKKLAMLAGGTGITPMYQVIQAILRDPEDKTEMSLVYANRTED 800
Query: 224 DILLREELEEAAAKNPDQFKLWYTVDRP-EDGWKYSTGFVSAEMIAEHLFPPSPDNLVLM 282
DILLREEL+ AA++PD+ K+WY V + +GWKYS G V+ M+ EHL + L LM
Sbjct: 801 DILLREELDRWAAEHPDRLKVWYVVSQVKREGWKYSVGRVTEAMLREHLPEGGDETLALM 860
Query: 283 CGPPRKTVKNNLKPEDKKEMKTLFSEFNKMKIHEGPPPMINFACKPNLDKLGYSEKLRFS 342
C GPPPMI FAC+PNL+K+GY +
Sbjct: 861 C---------------------------------GPPPMIEFACQPNLEKMGYDKDSILV 887
Query: 343 Y 343
+
Sbjct: 888 F 888
>gnl|CDD|99780 cd06183, cyt_b5_reduct_like, Cytochrome b5 reductase catalyzes the
reduction of 2 molecules of cytochrome b5 using NADH as
an electron donor. Like ferredoxin reductases, these
proteins have an N-terminal FAD binding subdomain and a
C-terminal NADH binding subdomain, separated by a cleft,
which accepts FAD. The NADH-binding moiety interacts
with part of the FAD and resembles a Rossmann fold.
However, NAD is bound differently than in canonical
Rossmann fold proteins. Nitrate reductases,
flavoproteins similar to pyridine nucleotide cytochrome
reductases, catalyze the reduction of nitrate to
nitrite. The enzyme can be divided into three functional
fragments that bind the cofactors molybdopterin,
heme-iron, and FAD/NADH.
Length = 234
Score = 312 bits (801), Expect = e-107
Identities = 132/292 (45%), Positives = 171/292 (58%), Gaps = 59/292 (20%)
Query: 53 LKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHG 112
KL K +I+HDTR FRFELPS + VLGLP+GQH+ L A + E V R YTP++ D+ G
Sbjct: 1 FKLVSKEDISHDTRIFRFELPSPDQVLGLPVGQHVELKAPDDGEQVVRPYTPISPDDDKG 60
Query: 113 YMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSK 172
Y DL++K+Y GGKMSQ+L ++K G+ + + GP G+ Y NG
Sbjct: 61 YFDLLIKIYP---------GGKMSQYLHSLKPGDTVEIRGPFGKFEYKPNG--------- 102
Query: 173 KDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELE 232
KV + MIAGGTGITPMLQL+R I KDP D TK+SL++AN++E+DILLREEL+
Sbjct: 103 -------KVKHIGMIAGGTGITPMLQLIRAILKDPEDKTKISLLYANRTEEDILLREELD 155
Query: 233 EAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFP-PSPDNLVLMCGPPRKTVK 291
E A K+PD+FK+ Y + RP +GWK GF++ EMI EHL P PS D LVL+C
Sbjct: 156 ELAKKHPDRFKVHYVLSRPPEGWKGGVGFITKEMIKEHLPPPPSEDTLVLVC-------- 207
Query: 292 NNLKPEDKKEMKTLFSEFNKMKIHEGPPPMINFACKPNLDKLGYSEKLRFSY 343
GPPPMI A K L +LGY + F +
Sbjct: 208 -------------------------GPPPMIEGAVKGLLKELGYKKDNVFKF 234
>gnl|CDD|173521 PTZ00319, PTZ00319, NADH-cytochrome B5 reductase; Provisional.
Length = 300
Score = 294 bits (755), Expect = 3e-99
Identities = 130/310 (41%), Positives = 174/310 (56%), Gaps = 48/310 (15%)
Query: 45 VDPDVKVPLKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATIND----EFVAR 100
+DPD+ KL +K E+ HDT FRF L S LGLPIGQH+ E V
Sbjct: 28 LDPDMFQHFKLIKKTEVTHDTFIFRFALHSPTQRLGLPIGQHIVFRCDCTTPGKPETVQH 87
Query: 101 AYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYL 160
+YTP++SD+ GY+D ++KVYFK VHP FP+GG++SQ L +MK+G+ I + GP G+ YL
Sbjct: 88 SYTPISSDDEKGYVDFLIKVYFKGVHPSFPNGGRLSQHLYHMKLGDKIEMRGPVGKFEYL 147
Query: 161 GNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQ 220
GNG + + + V +MIAGGTGITPMLQ++ I K+ D TK+ L++ANQ
Sbjct: 148 GNGTYTVHKGKGG--LKTMHVDAFAMIAGGTGITPMLQIIHAIKKNKEDRTKVFLVYANQ 205
Query: 221 SEKDILLREELEEAAAKNPDQFKLWYTVDRPED-GWKYSTGFVSAEMIAEHLFPPSPDNL 279
+E DILLR+EL+EAA +F +WYT+DR WKY TG+V EM+ HL P P N
Sbjct: 206 TEDDILLRKELDEAA--KDPRFHVWYTLDREATPEWKYGTGYVDEEMLRAHLPVPDPQNS 263
Query: 280 ------VLMCGPPRKTVKNNLKPEDKKEMKTLFSEFNKMKIHEGPPPMINFACKPNLDKL 333
LMC GPPPM+ A KPNL+K+
Sbjct: 264 GIKKVMALMC---------------------------------GPPPMLQMAVKPNLEKI 290
Query: 334 GYSEKLRFSY 343
GY+ F++
Sbjct: 291 GYTADNMFTF 300
>gnl|CDD|99778 cd00322, FNR_like, Ferredoxin reductase (FNR), an FAD and NAD(P)
binding protein, was intially identified as a
chloroplast reductase activity, catalyzing the electron
transfer from reduced iron-sulfur protein ferredoxin to
NADP+ as the final step in the electron transport
mechanism of photosystem I. FNR transfers electrons from
reduced ferredoxin to FAD (forming FADH2 via a
semiquinone intermediate) and then transfers a hydride
ion to convert NADP+ to NADPH. FNR has since been shown
to utilize a variety of electron acceptors and donors
and has a variety of physiological functions including
nitrogen assimilation, dinitrogen fixation, steroid
hydroxylation, fatty acid metabolism, oxygenase
activity, and methane assimilation in many organisms.
FNR has an NAD(P)-binding sub-domain of the alpha/beta
class and a discrete (usually N-terminal) flavin
sub-domain which vary in orientation with respect to the
NAD(P) binding domain. The N-terminal moeity may contain
a flavin prosthetic group (as in flavoenzymes) or use
flavin as a substrate. Because flavins such as FAD can
exist in oxidized, semiquinone (one- electron reduced),
or fully reduced hydroquinone forms, FNR can interact
with one and 2 electron carriers. FNR has a strong
preference for NADP(H) vs NAD(H).
Length = 223
Score = 133 bits (336), Expect = 2e-37
Identities = 64/248 (25%), Positives = 109/248 (43%), Gaps = 37/248 (14%)
Query: 57 EKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDL 116
++ D R FR +LP+ GQ++ L + + RAY+ +S + G ++L
Sbjct: 2 ATEDVTDDVRLFRLQLPN---GFSFKPGQYVDLHLPGDGRGLRRAYSIASSPDEEGELEL 58
Query: 117 VVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPP 176
VK+ GG S +L ++K G+ + VSGP G +
Sbjct: 59 TVKIV---------PGGPFSAWLHDLKPGDEVEVSGPGGD------------FFLPLEES 97
Query: 177 TNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAA 236
+ +IAGG GITP ++RH+ D +++L++ ++ D+L +ELEE A
Sbjct: 98 GPVV-----LIAGGIGITPFRSMLRHLAADK-PGGEITLLYGARTPADLLFLDELEELAK 151
Query: 237 KNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP------RKTV 290
+ P+ F+L + R + G + E L P LV +CGPP R+ +
Sbjct: 152 EGPN-FRLVLALSRESEAKLGPGGRIDREAEILALLPDDSGALVYICGPPAMAKAVREAL 210
Query: 291 KNNLKPED 298
+ PE+
Sbjct: 211 VSLGVPEE 218
>gnl|CDD|216220 pfam00970, FAD_binding_6, Oxidoreductase FAD-binding domain.
Length = 99
Score = 127 bits (322), Expect = 8e-37
Identities = 50/108 (46%), Positives = 69/108 (63%), Gaps = 9/108 (8%)
Query: 52 PLKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHH 111
P KL EK ++HD R FRF LPS + VLGLP GQH+ L I+ + V RAY+P +S +
Sbjct: 1 PAKLVEKESLSHDVRRFRFALPSPDQVLGLPPGQHIFLRLPIDGKLVVRAYSPASSPDDV 60
Query: 112 GYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAY 159
G ++L+VKVY GGKMSQ+L+++K+G+ + V GP G Y
Sbjct: 61 GELELLVKVY---------PGGKMSQYLDSLKIGDTVEVKGPLGHFEY 99
>gnl|CDD|140300 PTZ00274, PTZ00274, cytochrome b5 reductase; Provisional.
Length = 325
Score = 130 bits (329), Expect = 2e-35
Identities = 79/249 (31%), Positives = 121/249 (48%), Gaps = 46/249 (18%)
Query: 52 PLKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATIN-----DEFVARAYTPVT 106
P +L E I I HDT FRF L S E P +L A + R YTPVT
Sbjct: 54 PYQLGEVIPITHDTALFRFLLHSEEEFNLKPCS---TLQACYKYGVQPMDQCQRFYTPVT 110
Query: 107 SDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 166
++ GY D++VK G M+ L M VG+ + ++ Y N H
Sbjct: 111 ANHTKGYFDIIVKR---------KKDGLMTNHLFGMHVGDKLLFRSVTFKIQYRPNRWKH 161
Query: 167 IRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDP-----TDNTKMSLIFANQS 221
+ MIAGGTG TPMLQ++RH +P D TK+S +F N++
Sbjct: 162 V-----------------GMIAGGTGFTPMLQIIRHSLTEPWDSGEVDRTKLSFLFCNRT 204
Query: 222 EKDILLREELEEAAAKNPDQFKLWYTVDRP--EDGWKYSTGFVSAEMIAEHLFPPSPD-- 277
E+ ILL+ ++ A + ++FK++YT+D+ D W + G+V+ EM+ + P+P+
Sbjct: 205 ERHILLKGLFDDLARRYSNRFKVYYTIDQAVEPDKWNHFLGYVTKEMVRRTM--PAPEEK 262
Query: 278 -NLVLMCGP 285
++++CGP
Sbjct: 263 KKIIMLCGP 271
>gnl|CDD|215769 pfam00175, NAD_binding_1, Oxidoreductase NAD-binding domain.
Xanthine dehydrogenases, that also bind FAD/NAD, have
essentially no similarity.
Length = 106
Score = 120 bits (303), Expect = 7e-34
Identities = 44/101 (43%), Positives = 65/101 (64%), Gaps = 3/101 (2%)
Query: 186 MIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLW 245
MIAGGTGI P+ +++ + +D D T++ L++ N++E D+LLREELEE A K P+ K+
Sbjct: 1 MIAGGTGIAPLYSVLKALLED-EDGTEVYLVYGNRTEDDLLLREELEELAKKYPN-LKVV 58
Query: 246 YTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
V R +DGW G+V+ ++ EHL D V +CGPP
Sbjct: 59 A-VSRTDDGWYGRKGYVTDALLEEHLSEDLGDTDVYVCGPP 98
>gnl|CDD|223617 COG0543, UbiB, 2-polyprenylphenol hydroxylase and related
flavodoxin oxidoreductases [Coenzyme metabolism / Energy
production and conversion].
Length = 252
Score = 119 bits (301), Expect = 5e-32
Identities = 75/281 (26%), Positives = 124/281 (44%), Gaps = 48/281 (17%)
Query: 50 KVPLKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDE 109
+ K+ EK EI+ DT R LP L GQ + L R Y+ ++ +
Sbjct: 7 LMSYKVVEKEEISPDTFLLRLRLPFVA--LTFKPGQFVMLRVPGGVR---RPYSLASAPD 61
Query: 110 HHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRA 169
G ++L ++VY + GK+++++ +K G+ I V GP LGNG F
Sbjct: 62 DKGELELHIRVY---------EVGKVTKYIFGLKEGDKIRVRGP------LGNG-FLREK 105
Query: 170 VSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLRE 229
+ K + +IAGGTGI P+ + + + + N K++L++ ++ KD+LL +
Sbjct: 106 IGKP----------VLLIAGGTGIAPLYAIAKELKEKGDAN-KVTLLYGARTAKDLLLLD 154
Query: 230 ELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPPR-- 287
ELEE A K + D DGWK GFV+ +++ E L + V +CGPP
Sbjct: 155 ELEELAEKE-----VHPVTD---DGWKGRKGFVTTDVLKELL--DLEVDDVYICGPPAMV 204
Query: 288 KTVKNNLKPEDKKEMKTLFSEFNKMKIHEGPPPMINFACKP 328
K V+ LK + + + + + C
Sbjct: 205 KAVREKLKEYGVP----ISASLVSIMCRVSVDGGVKYVCLD 241
>gnl|CDD|99810 cd06214, PA_degradation_oxidoreductase_like, NAD(P) binding domain
of ferredoxin reductase like phenylacetic acid (PA)
degradation oxidoreductase. PA oxidoreductases of E.
coli hydroxylate PA-CoA in the second step of PA
degradation. Members of this group typically fuse a
ferredoxin reductase-like domain with an iron-sulfur
binding cluster domain. Ferredoxins catalyze electron
transfer between an NAD(P)-binding domain of the
alpha/beta class and a discrete (usually N-terminal)
domain which vary in orientation with respect to the
NAD(P) binding domain. The N-terminal portion may
contain a flavin prosthetic group, as in flavoenzymes,
or use flavin as a substrate. Ferredoxin-NADP+
(oxido)reductase is an FAD-containing enzyme that
catalyzes the reversible electron transfer between
NADP(H) and electron carrier proteins such as ferredoxin
and flavodoxin. Isoforms of these flavoproteins (i.e.
having a non-covalently bound FAD as a prosthetic group)
are present in chloroplasts, mitochondria, and bacteria
and participate in a wide variety of redox metabolic
pathways. The C-terminal domain contains most of the
NADP(H) binding residues and the N-terminal domain
interacts non-covalently with the isoalloxazine rings of
the flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 241
Score = 116 bits (294), Expect = 6e-31
Identities = 56/242 (23%), Positives = 99/242 (40%), Gaps = 38/242 (15%)
Query: 52 PLKLKEKIEINHDTRCFRFELPSA-EHVLGLPIGQHLSLSATINDEFVARAY---TPVTS 107
PL + E + D F++P GQ L+L I+ E V R+Y +
Sbjct: 3 PLTVAEVVRETADAVSITFDVPEELRDAFRYRPGQFLTLRVPIDGEEVRRSYSICSSPGD 62
Query: 108 DEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFH 166
DE L + V K V GG+ S + + +K G+ + V P GR F
Sbjct: 63 DE------LRITV--KRV-----PGGRFSNWANDELKAGDTLEVMPPAGR--------FT 101
Query: 167 IRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDIL 226
P + A G+GITP+L +++ + ++L++ N++E ++
Sbjct: 102 --------LPPLPGARHYVLFAAGSGITPVLSILKTALAREPASR-VTLVYGNRTEASVI 152
Query: 227 LREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAE---HLFPPSPDNLVLMC 283
REEL + A+ PD+ + + + R + G + A + +L + + +C
Sbjct: 153 FREELADLKARYPDRLTVIHVLSREQGDPDLLRGRLDAAKLNALLKNLLDATEFDEAFLC 212
Query: 284 GP 285
GP
Sbjct: 213 GP 214
>gnl|CDD|99813 cd06217, FNR_iron_sulfur_binding_3, Iron-sulfur binding ferredoxin
reductase (FNR) proteins combine the FAD and NAD(P)
binding regions of FNR with an iron-sulfur binding
cluster domain. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
between the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 235
Score = 114 bits (288), Expect = 3e-30
Identities = 61/227 (26%), Positives = 106/227 (46%), Gaps = 33/227 (14%)
Query: 63 HDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEF-VARAYTPVTSDEHHGYMDLVVKVY 121
+ FR +P L GQH+ L T D + R+Y+ +S G ++L VK
Sbjct: 14 PTVKTFRLAVPDGVPPPFLA-GQHVDLRLTAIDGYTAQRSYSIASSPTQRGRVELTVKRV 72
Query: 122 FKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLK 180
GG++S +L + +KVG+ + V GP G F L
Sbjct: 73 ---------PGGEVSPYLHDEVKVGDLLEVRGP--------IGTFTWN---------PLH 106
Query: 181 VTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPD 240
+ ++AGG+GI P++ ++R+ D L+++ ++ +D++ R+ELE+ A ++P+
Sbjct: 107 GDPVVLLAGGSGIVPLMSMIRYRR-DLGWPVPFRLLYSARTAEDVIFRDELEQLARRHPN 165
Query: 241 QFKLWYTVDRPED-GWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
+ + R W G ++A++IAE L PP V +CGPP
Sbjct: 166 -LHVTEALTRAAPADWLGPAGRITADLIAE-LVPPLAGRRVYVCGPP 210
>gnl|CDD|99811 cd06215, FNR_iron_sulfur_binding_1, Iron-sulfur binding ferredoxin
reductase (FNR) proteins combine the FAD and NAD(P)
binding regions of FNR with an iron-sulfur binding
cluster domain. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal portion of the FAD/NAD binding domain
contains most of the NADP(H) binding residues and the
N-terminal sub-domain interacts non-covalently with the
isoalloxazine rings of the flavin molecule which lies
largely in a large gap betweed the two domains. In this
ferredoxin like sub-group, the FAD/NAD sub-domains is
typically fused to a C-terminal iron-sulfur binding
domain. Iron-sulfur proteins play an important role in
electron transfer processes and in various enzymatic
reactions. The family includes plant and algal
ferredoxins which act as electron carriers in
photosynthesis and ferredoxins which participate in
redox chains from bacteria to mammals. Ferredoxin
reductase first accepts one electron from reduced
ferredoxin to form a flavin semiquinone intermediate.
The enzyme then accepts a second electron to form FADH2
which then transfers two electrons and a proton to NADP+
to form NADPH.
Length = 231
Score = 109 bits (276), Expect = 2e-28
Identities = 76/251 (30%), Positives = 119/251 (47%), Gaps = 42/251 (16%)
Query: 53 LKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYT----PVTSD 108
L+ + I+ D + FRF P P GQ L+L I+ E V RAYT P D
Sbjct: 1 LRCVKIIQETPDVKTFRFAAPDGSLFAYKP-GQFLTLELEIDGETVYRAYTLSSSPSRPD 59
Query: 109 EHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHI 167
+ + VK GG +S +L +N+KVG+ + SGP G EF +
Sbjct: 60 ----SLSITVKRV---------PGGLVSNWLHDNLKVGDELWASGPAG--------EFTL 98
Query: 168 RAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILL 227
D P + +L +++ G+GITPM+ + R + + + I + +S DI+
Sbjct: 99 -----IDHPAD----KLLLLSAGSGITPMMSMARWLLDTR-PDADIVFIHSARSPADIIF 148
Query: 228 REELEEAAAKNPDQFKLWYTVDRPEDG-WKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
+ELEE A ++P F+L +++P G W G ++AE++A L P + V +CGP
Sbjct: 149 ADELEELARRHP-NFRLHLILEQPAPGAWGGYRGRLNAELLAL-LVPDLKERTVFVCGPA 206
Query: 287 --RKTVKNNLK 295
K VK+ L
Sbjct: 207 GFMKAVKSLLA 217
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 109 bits (274), Expect = 3e-26
Identities = 66/235 (28%), Positives = 117/235 (49%), Gaps = 21/235 (8%)
Query: 65 TRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKN 124
+R RF LP A GL +GQ +++ + + + Y+P+T + G + ++ +
Sbjct: 932 SRVLRFNLPGALQRSGLTLGQFIAIRGDWDGQQLIGYYSPITLPDDLGVISILAR----- 986
Query: 125 VHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQL 184
D G + +++ ++ G+ + + G R K+ + +L
Sbjct: 987 -----GDKGTLKEWISALRPGDSVEMKACGGLR-------IERRPADKQFVFRGHVIRKL 1034
Query: 185 SMIAGGTGITPMLQLVRHITKDP-TDNTK-MSLIFANQSEKDILLREELEEAAAKNPDQF 242
++IAGGTG+ PMLQ++R K P D+ + + LI+A + ++ RE LE +NP +F
Sbjct: 1035 ALIAGGTGVAPMLQIIRAALKKPYVDSIESIRLIYAAEDVSELTYRELLESYRKENPGKF 1094
Query: 243 KLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP--RKTVKNNLK 295
K + ++ P +GW GFV ++ L PPS D LV +CGPP ++ VK +L
Sbjct: 1095 KCHFVLNNPPEGWTDGVGFVDRALLQSALQPPSKDLLVAICGPPVMQRAVKADLL 1149
>gnl|CDD|223949 COG1018, Hmp, Flavodoxin reductases (ferredoxin-NADPH reductases)
family 1 [Energy production and conversion].
Length = 266
Score = 90.4 bits (225), Expect = 5e-21
Identities = 60/250 (24%), Positives = 93/250 (37%), Gaps = 58/250 (23%)
Query: 47 PDVKVPLKLKEKIEINHDTRCFRFELPSAEHVLGLPI----GQHLSLSATINDEFVARAY 102
+ + D F E P GL + GQ++++ E + RAY
Sbjct: 2 SAGFRRVTVTSVEPETDDVFSFTLEPPD-----GLRLDFEPGQYITVGLPNGGEPLLRAY 56
Query: 103 TPVTS-DEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYL 160
+ ++ DE Y + VK DGG S +L +++KVG+ + VS P G
Sbjct: 57 SLSSAPDEDSLYR-ISVKR---------EDGGGGSNWLHDHLKVGDTLEVSAPAGDFVL- 105
Query: 161 GNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDN--TKMSLIFA 218
P L ++AGG GITP L + + D + L+ A
Sbjct: 106 -----------DDLPERKL-----LLLAGGIGITPFLS----MLRTLLDRGPADVVLVHA 145
Query: 219 NQSEKDILLREELEEAAAKNPDQFKL-WYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPD 277
++ D+ R+E E AA+ P+ L YT G + L +PD
Sbjct: 146 ARTPADLAFRDE-LELAAELPNALLLGLYTERGKLQG----------RIDVSRLLSAAPD 194
Query: 278 NL--VLMCGP 285
V +CGP
Sbjct: 195 GGREVYLCGP 204
>gnl|CDD|99812 cd06216, FNR_iron_sulfur_binding_2, Iron-sulfur binding ferredoxin
reductase (FNR) proteins combine the FAD and NAD(P)
binding regions of FNR with an iron-sulfur binding
cluster domain. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 243
Score = 88.8 bits (221), Expect = 1e-20
Identities = 54/207 (26%), Positives = 96/207 (46%), Gaps = 40/207 (19%)
Query: 84 GQHLSLSATINDEFVARAYTPVTSDEH-HGYMDLVVKVYFKNVHPKFPDGGKMSQFL-EN 141
GQH+ L I+ R+Y+ +S G + L VK P G +S +L +
Sbjct: 49 GQHVRLGVEIDGVRHWRSYSLSSSPTQEDGTITLTVKA-----QP----DGLVSNWLVNH 99
Query: 142 MKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVR 201
+ G+ + +S P+G +F + PP L +IA G+GITP++ ++R
Sbjct: 100 LAPGDVVELSQPQG--------DFVLPDPL---PPRLL------LIAAGSGITPVMSMLR 142
Query: 202 -HITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPD-QFKLWYTVDRPEDGWKYST 259
+ + PT + L++ ++ +D++ +EL AA++P+ + L YT + +
Sbjct: 143 TLLARGPTADV--VLLYYARTREDVIFADELRALAAQHPNLRLHLLYTREELD------- 193
Query: 260 GFVSAEMIAEHLFPPSPDNLVLMCGPP 286
G +SA + + P D V CGPP
Sbjct: 194 GRLSAAHLDAVV-PDLADRQVYACGPP 219
>gnl|CDD|99793 cd06196, FNR_like_1, Ferredoxin reductase-like proteins catalyze
electron transfer between an NAD(P)-binding domain of
the alpha/beta class and a discrete (usually N-terminal)
domain which varies in orientation with respect to the
NAD(P) binding domain. The N-terminal region may contain
a flavin prosthetic group (as in flavoenzymes) or use
flavin as a substrate. Ferredoxin is reduced in the
final stage of photosystem I. The flavoprotein
Ferredoxin-NADP+ reductase transfers electrons from
reduced ferredoxin to FAD (forming FADH2 via a
semiquinone intermediate) which then transfers a hydride
ion to convert NADP+ to NADPH.
Length = 218
Score = 86.5 bits (215), Expect = 5e-20
Identities = 64/252 (25%), Positives = 103/252 (40%), Gaps = 57/252 (22%)
Query: 53 LKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATIN-----DEFVARAYTPVTS 107
+ L + HD + RF+ P GQ ++ I+ DE R +T TS
Sbjct: 3 VTLLSIEPVTHDVKRLRFDKP---EGYDFTPGQATEVA--IDKPGWRDEK--RPFTF-TS 54
Query: 108 DEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHI 167
++ V+K Y PD +++ L ++ G+ + + P G + Y G G F
Sbjct: 55 LPEDDVLEFVIKSY--------PDHDGVTEQLGRLQPGDTLLIEDPWGAIEYKGPGVF-- 104
Query: 168 RAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPT--DNTKMSLIFANQSEKDI 225
IAGG GITP + ++R + NT LIFAN++EKDI
Sbjct: 105 -------------------IAGGAGITPFIAILRDLAAKGKLEGNT---LIFANKTEKDI 142
Query: 226 LLREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGP 285
+L++ELE+ K V E Y+ G + + +H+ + +CGP
Sbjct: 143 ILKDELEKM-----LGLKFINVVTD-EKDPGYAHGRIDKAFLKQHV--TDFNQHFYVCGP 194
Query: 286 PR--KTVKNNLK 295
P + + LK
Sbjct: 195 PPMEEAINGALK 206
>gnl|CDD|99788 cd06191, FNR_iron_sulfur_binding, Iron-sulfur binding Ferredoxin
Reductase (FNR) proteins combine the FAD and NAD(P)
binding regions of FNR with a C-terminal iron-sulfur
binding cluster domain. FNR was intially identified as a
chloroplast reductase activity catalyzing the electron
transfer from reduced iron-sulfur protein ferredoxin to
NADP+ as the final step in the electron transport
mechanism of photosystem I. FNR transfers electrons from
reduced ferredoxin to FAD (forming FADH2 via a
semiquinone intermediate) and then transfers a hydride
ion to convert NADP+ to NADPH. FNR has since been shown
to utilize a variety of electron acceptors and donors
and has a variety of physiological functions including
nitrogen assimilation, dinitrogen fixation, steroid
hydroxylation, fatty acid metabolism, oxygenase
activity, and methnae assimilation in a variety of
organisms. FNR has an NAD(P)-binding sub-domain of the
alpha/beta class and a discrete (usually N-terminal)
flavin sub-domain which vary in orientation with respect
to the NAD(P) binding domain. The N-terminal moeity may
contain a flavin prosthetic group (as in flavoenzymes)
or use flavin as a substrate. Because flavins such as
FAD can exist in oxidized, semiquinone (one- electron
reduced), or fully reduced hydroquinone forms, FNR can
interact with one and 2 electron carriers. FNR has a
strong preference for NADP(H) vs NAD(H).
Length = 231
Score = 83.7 bits (207), Expect = 7e-19
Identities = 50/225 (22%), Positives = 92/225 (40%), Gaps = 32/225 (14%)
Query: 63 HDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYF 122
D F +P P GQH++L + E + R Y+ + S + + VK
Sbjct: 11 PDAVTIVFAVPGPLQYGFRP-GQHVTLKLDFDGEELRRCYS-LCSSPAPDEISITVK--- 65
Query: 123 KNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKV 181
+ P GG++S +L E+++ G + V GP+G Y + P L
Sbjct: 66 -----RVP-GGRVSNYLREHIQPGMTVEVMGPQGHFVY-----------QPQPPGRYL-- 106
Query: 182 TQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPD- 240
++A G+GITP++ ++R T + +LI + ++ D++ +EL E A K
Sbjct: 107 ----LVAAGSGITPLMAMIR-ATLQTAPESDFTLIHSARTPADMIFAQELRELADKPQRL 161
Query: 241 QFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGP 285
+ +T + + + + L P + +CGP
Sbjct: 162 RLLCIFTRETLDSDLLHGRIDGEQSL-GAALIPDRLEREAFICGP 205
>gnl|CDD|99817 cd06221, sulfite_reductase_like, Anaerobic sulfite reductase
contains an FAD and NADPH binding module with structural
similarity to ferredoxin reductase and sequence
similarity to dihydroorotate dehydrogenases. Clostridium
pasteurianum inducible dissimilatory type sulfite
reductase is linked to ferredoxin and reduces NH2OH and
SeO3 at a lesser rate than it's normal substate SO3(2-).
Dihydroorotate dehydrogenases (DHODs) catalyze the only
redox reaction in pyrimidine de novo biosynthesis. They
catalyze the oxidation of (S)-dihydroorotate to orotate
coupled with the reduction of NAD+.
Length = 253
Score = 82.7 bits (205), Expect = 3e-18
Identities = 56/206 (27%), Positives = 95/206 (46%), Gaps = 56/206 (27%)
Query: 133 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
G++++ L +K G+ + + GP GNG F + + KD L ++AGG G
Sbjct: 66 GRVTEALHELKPGDTVGLRGP------FGNG-FPVEEMKGKD---------LLLVAGGLG 109
Query: 193 ITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPE 252
+ P+ L+ +I + D K++L++ ++ +D+L +EEL+E A + ++ TVDR E
Sbjct: 110 LAPLRSLINYILDNREDYGKVTLLYGARTPEDLLFKEELKEWAKR--SDVEVILTVDRAE 167
Query: 253 DGWKYSTGFVSAEMIAEHLFPPSPDNLV-LMCGPPRKTVKNNLKPEDKKEMKTLFSEFNK 311
+GW + G V+ +++ E PDN V ++C
Sbjct: 168 EGWTGNVGLVT-DLLPEL--TLDPDNTVAIVC---------------------------- 196
Query: 312 MKIHEGPPPMINFACKPNLDKLGYSE 337
GPP M+ F K L KLG E
Sbjct: 197 -----GPPIMMRFVAK-ELLKLGVPE 216
>gnl|CDD|99781 cd06184, flavohem_like_fad_nad_binding, FAD_NAD(P)H binding domain
of flavohemoglobin. Flavohemoglobins have a globin
domain containing a B-type heme fused with a ferredoxin
reductase-like FAD/NAD-binding domain. Flavohemoglobins
detoxify nitric oxide (NO) via an NO dioxygenase
reaction. The hemoglobin domain adopts a globin fold
with an embedded heme molecule. Flavohemoglobins also
have a C-terminal reductase domain with bindiing sites
for FAD and NAD(P)H. This domain catalyzes the
conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+.
Instead of the oxygen transport function of hemoglobins,
flavohemoglobins seem to act in NO dioxygenation and NO
signalling.
Length = 247
Score = 81.1 bits (201), Expect = 8e-18
Identities = 56/220 (25%), Positives = 97/220 (44%), Gaps = 38/220 (17%)
Query: 84 GQHLSLSATINDE--FVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-E 140
GQ+LS+ + R Y+ ++ + Y + VK + GG +S +L +
Sbjct: 40 GQYLSVRVKLPGLGYRQIRQYS-LSDAPNGDYYRISVK---RE------PGGLVSNYLHD 89
Query: 141 NMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLV 200
N+KVG+ + VS P G +F + S + P L I+ G GITPML ++
Sbjct: 90 NVKVGDVLEVSAPAG--------DFVLDEASDR--PLVL-------ISAGVGITPMLSML 132
Query: 201 RHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPD-QFKLWYTVDRPEDGWKY-- 257
+ + ++ I A ++ R+ELEE AA+ P+ + ++Y+ D +
Sbjct: 133 EALAAEGPG-RPVTFIHAARNSAVHAFRDELEELAARLPNLKLHVFYSEPEAGDREEDYD 191
Query: 258 STGFVSAEMIAEHLFPPSPDNLVLMCGPPR--KTVKNNLK 295
G + ++ E L P D +CGP + V+ LK
Sbjct: 192 HAGRIDLALLRELLLPADAD--FYLCGPVPFMQAVREGLK 229
>gnl|CDD|99787 cd06190, T4MO_e_transfer_like, Toluene-4-monoxygenase electron
transfer component of Pseudomonas mendocina hydroxylates
toluene and forms p-cresol as part of a three component
toluene-4-monoxygenase system. Electron transfer is from
NADH to an NADH:ferredoxin oxidoreductase (TmoF in P.
mendocina) to ferredoxin to an iron-containing
oxygenase. TmoF is homologous to other mono- and
dioxygenase systems within the ferredoxin reductase
family.
Length = 232
Score = 79.6 bits (197), Expect = 2e-17
Identities = 60/239 (25%), Positives = 95/239 (39%), Gaps = 39/239 (16%)
Query: 55 LKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYM 114
L + E+ HD FRF L LP GQ+ L+ + ARAY+ G
Sbjct: 1 LVDVRELTHDVAEFRFAL--DGPADFLP-GQYALLALPGVE--GARAYSMANLANASGEW 55
Query: 115 DLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKK 173
+ ++K GG S L +N++ G+ + + GP G AYL R +
Sbjct: 56 EFIIKRK---------PGGAASNALFDNLEPGDELELDGPYGL-AYL-------RPDEDR 98
Query: 174 DPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPT-DNTKMSLIFANQSEKDILLREELE 232
D + IAGG+G+ PML ++R + P + + L + ++ D+ +EL
Sbjct: 99 D---------IVCIAGGSGLAPMLSILRGAARSPYLSDRPVDLFYGGRTPSDLCALDELS 149
Query: 233 EAAAKNPDQFKLWYTVDRPEDG----WKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPPR 287
A + ++ V G W TGFV E++ L + GPP
Sbjct: 150 ALVALG-ARLRVTPAVSDAGSGSAAGWDGPTGFV-HEVVEATLGDRLAEFEFYFAGPPP 206
>gnl|CDD|99785 cd06188, NADH_quinone_reductase, Na+-translocating NADH:quinone
oxidoreductase (Na+-NQR) FAD/NADH binding domain.
(Na+-NQR) provides a means of storing redox reaction
energy via the transmembrane translocation of Na2+ ions.
The C-terminal domain resembles ferredoxin:NADP+
oxidoreductase, and has NADH and FAD binding sites.
(Na+-NQR) is distinct from H+-translocating NADH:quinone
oxidoreductases and noncoupled NADH:quinone
oxidoreductases. The NAD(P) binding domain of ferredoxin
reductase-like proteins catalyze electron transfer
between an NAD(P)-binding domain of the alpha/beta class
and a discrete (usually N-terminal) domain which vary in
orientation with respect to the NAD(P) binding domain.
The N-terminal domain of this group typically contains
an iron-sulfur cluster binding domain.
Length = 283
Score = 80.0 bits (198), Expect = 4e-17
Identities = 63/259 (24%), Positives = 105/259 (40%), Gaps = 30/259 (11%)
Query: 36 SSKKELKTLVDPDVKVPLKLKEKIEINHDTRCFRF-ELPSAEHVLGLPIGQHLSLSATIN 94
+ KEL + ++ K I+I + + AE L +
Sbjct: 22 TFIKELVLKLPSGEEIAFKAGGYIQIEIPAYEIAYADFDVAEKYRADWDKFGLWQLVFKH 81
Query: 95 DEFVARAYTPVTSDEHHGYMDLVVKVYF-KNVHPKFPDGGKMSQFLENMKVGEPINVSGP 153
DE V+RAY+ G + L V++ + P G S ++ N+K G+ + SGP
Sbjct: 82 DEPVSRAYSLANYPAEEGELKLNVRIATPPPGNSDIPPG-IGSSYIFNLKPGDKVTASGP 140
Query: 154 RGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKM 213
+ GEF I+ + ++ I GG G+ P+ + H+ K K+
Sbjct: 141 -----F---GEFFIKDTDR----------EMVFIGGGAGMAPLRSHIFHLLKTLKSKRKI 182
Query: 214 SLIFANQSEKDILLREELEEAAAKNPDQFKLWYTV---DRPEDGWKYSTGFVS---AEMI 267
S + +S K++ +EE E + P+ FK ++ V +PED W TGF+ E
Sbjct: 183 SFWYGARSLKELFYQEEFEALEKEFPN-FK-YHPVLSEPQPEDNWDGYTGFIHQVLLENY 240
Query: 268 AEHLFPPSPDNLVLMCGPP 286
+ P D +CGPP
Sbjct: 241 LKKHPAP-EDIEFYLCGPP 258
>gnl|CDD|99784 cd06187, O2ase_reductase_like, The oxygenase reductase FAD/NADH
binding domain acts as part of the multi-component
bacterial oxygenases which oxidize hydrocarbons using
oxygen as the oxidant. Electron transfer is from NADH
via FAD (in the oxygenase reductase) and an [2FE-2S]
ferredoxin center (fused to the FAD/NADH domain and/or
discrete) to the oxygenase. Dioxygenases add both atoms
of oxygen to the substrate, while mono-oxygenases (aka
mixed oxygenases) add one atom to the substrate and one
atom to water. In dioxygenases, Class I enzymes are 2
component, containing a reductase with Rieske type
[2Fe-2S] redox centers and an oxygenase. Class II are 3
component, having discrete flavin and ferredoxin
proteins and an oxygenase. Class III have 2 [2Fe-2S]
centers, one fused to the flavin domain and the other
separate.
Length = 224
Score = 77.2 bits (191), Expect = 2e-16
Identities = 52/232 (22%), Positives = 92/232 (39%), Gaps = 37/232 (15%)
Query: 57 EKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDL 116
+ HD R +L GQ++++ RAY+P G ++
Sbjct: 3 SVERLTHDIAVVRLQLDQPLPFWA---GQYVNV-TVPGRPRTWRAYSPANPPNEDGEIEF 58
Query: 117 VVKVYFKNVHPKFPDGGKMSQFLEN-MKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDP 175
V+ GG++S L + +KVG+ + +SGP G F++R +
Sbjct: 59 HVRAV---------PGGRVSNALHDELKVGDRVRLSGPYGT--------FYLRRDHDRP- 100
Query: 176 PTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAA 235
+ IAGGTG+ P+ +V + + L F ++E+D+ E L A
Sbjct: 101 --------VLCIAGGTGLAPLRAIVEDALRRGEPR-PVHLFFGARTERDLYDLEGLLALA 151
Query: 236 AKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNL-VLMCGPP 286
A++P ++ V E W G V +++ P + + +CGPP
Sbjct: 152 ARHPW-LRVVPVVSHEEGAWTGRRGLV-TDVVGRDG--PDWADHDIYICGPP 199
>gnl|CDD|99805 cd06209, BenDO_FAD_NAD, Benzoate dioxygenase reductase (BenDO)
FAD/NAD binding domain. Oxygenases oxidize hydrocarbons
using dioxygen as the oxidant. As a Class I bacterial
dioxygenases, benzoate dioxygenase like proteins combine
an [2Fe-2S] cluster containing N-terminal ferredoxin at
the end fused to an FAD/NADP(P) domain. In dioxygenase
FAD/NAD(P) binding domain, the reductase transfers 2
electrons from NAD(P)H to the oxygenase which insert
into an aromatic substrate, an initial step in microbial
aerobic degradation of aromatic rings. Flavin
oxidoreductases use flavins as substrates, unlike
flavoenzymes which have a flavin prosthetic group.
Length = 228
Score = 76.1 bits (188), Expect = 3e-16
Identities = 58/228 (25%), Positives = 101/228 (44%), Gaps = 39/228 (17%)
Query: 61 INHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPV-TSDEHHGYMDLVVK 119
++ T EL A + LP GQ+++L DE R+Y+ + ++
Sbjct: 12 LSDSTIGLTLELDEAGALAFLP-GQYVNLQVPGTDET--RSYSFSSAPGDPR------LE 62
Query: 120 VYFKNVHPKFPDGGKMSQFLENM-KVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTN 178
+ + GG MS +L + + G+ + ++GP G F++R V K P
Sbjct: 63 FLIRLL-----PGGAMSSYLRDRAQPGDRLTLTGPLG--------SFYLREV--KRP--- 104
Query: 179 LKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKN 238
L M+AGGTG+ P L ++ + +D + + + L++ + D++ + LE A +
Sbjct: 105 -----LLMLAGGTGLAPFLSMLDVLAEDGSAH-PVHLVYGVTRDADLVELDRLEALAERL 158
Query: 239 PDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
P F V P+ W G+V+ + AE L D V +CGPP
Sbjct: 159 PG-FSFRTVVADPDS-WHPRKGYVTDHLEAEDL--NDGDVDVYLCGPP 202
>gnl|CDD|181300 PRK08221, PRK08221, anaerobic sulfite reductase subunit B;
Provisional.
Length = 263
Score = 75.7 bits (187), Expect = 9e-16
Identities = 59/199 (29%), Positives = 97/199 (48%), Gaps = 41/199 (20%)
Query: 107 SDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 166
SD GY+DL ++ V GK++ + N+K G+ + + GP Y GNG F
Sbjct: 54 SDYGDGYIDLTIR----RV-------GKVTDEIFNLKEGDKLFLRGP-----Y-GNG-F- 94
Query: 167 IRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDIL 226
P K +L ++AGGTG+ P+ L+R+ ++P + + LI ++ DIL
Sbjct: 95 --------PVDTYKGKELIVVAGGTGVAPVKGLMRYFYENPQEIKSLDLILGFKNPDDIL 146
Query: 227 LREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNL-VLMCGP 285
+E+L+ K L T+D E+G++ + G V+ + I E DN+ V++ GP
Sbjct: 147 FKEDLKRWREK----INLILTLDEGEEGYRGNVGLVT-KYIPELTL-KDIDNMQVIVVGP 200
Query: 286 P---RKTV----KNNLKPE 297
P + TV K +K E
Sbjct: 201 PIMMKFTVLEFLKRGIKEE 219
>gnl|CDD|99806 cd06210, MMO_FAD_NAD_binding, Methane monooxygenase (MMO) reductase
of methanotrophs catalyzes the NADH-dependent
hydroxylation of methane to methanol. This
multicomponent enzyme mediates electron transfer via a
hydroxylase (MMOH), a coupling protein, and a reductase
which is comprised of an N-terminal [2Fe-2S] ferredoxin
domain, an FAD binding subdomain, and an NADH binding
subdomain. Oxygenases oxidize hydrocarbons using
dioxygen as the oxidant. Dioxygenases add both atom of
oxygen to the substrate, while mono-oxygenases add one
atom to the substrate and one atom to water.
Length = 236
Score = 74.7 bits (184), Expect = 1e-15
Identities = 51/207 (24%), Positives = 86/207 (41%), Gaps = 36/207 (17%)
Query: 84 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLEN-M 142
GQ + + I R+Y+ + G ++ ++++ P GG S +LE
Sbjct: 38 GQFVEIE--IPGTDTRRSYSLANTPNWDGRLEFLIRL-----LP----GGAFSTYLETRA 86
Query: 143 KVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRH 202
KVG+ +N+ GP G NG R +AGGTG+ P+L ++R
Sbjct: 87 KVGQRLNLRGPLGAFGLRENG-LRPRW----------------FVAGGTGLAPLLSMLRR 129
Query: 203 ITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFV 262
+ + + + L F +E ++ +EL+ A P + V RP W+ G V
Sbjct: 130 M-AEWGEPQEARLFFGVNTEAELFYLDELKRLADSLP-NLTVRICVWRPGGEWEGYRGTV 187
Query: 263 SAEMIAEHL--FPPSPDNLVLMCGPPR 287
+ + E L PD + +CGPP
Sbjct: 188 -VDALREDLASSDAKPD--IYLCGPPG 211
>gnl|CDD|130996 TIGR01941, nqrF, NADH:ubiquinone oxidoreductase,
Na(+)-translocating, F subunit. This model represents
the NqrF subunit of the six-protein, Na(+)-pumping
NADH-quinone reductase of a number of marine and
pathogenic Gram-negative bacteria. This oxidoreductase
complex functions primarily as a sodium ion pump
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 405
Score = 76.0 bits (187), Expect = 3e-15
Identities = 64/263 (24%), Positives = 106/263 (40%), Gaps = 44/263 (16%)
Query: 39 KELKTLVDPDVKVPLKLKEKIEIN---HDTRCFRFELPSA-----EHVLGLPIGQHLSLS 90
KEL + VP K I+I H + F++P E +L
Sbjct: 145 KELVLKLPDGESVPFKAGGYIQIEAPPHVVKYADFDIPPEYRGDWEKF-------NLFDL 197
Query: 91 ATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDG----GKMSQFLENMKVGE 146
+ DE RAY+ G + L V++ P F + G MS ++ ++K G+
Sbjct: 198 VSKVDEETVRAYSMANYPAEKGIIKLNVRI----ATPPFINSDIPPGIMSSYIFSLKPGD 253
Query: 147 PINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKD 206
+ +SGP G EF KD ++ I GG G+ PM + K
Sbjct: 254 KVTISGPFG--------EFFA-----KDTDA-----EMVFIGGGAGMAPMRSHIFDQLKR 295
Query: 207 PTDNTKMSLIFANQSEKDILLREELEEAAAKNPD-QFKLWYTVDRPEDGWKYSTGFVSAE 265
K+S + +S +++ +E+ ++ A+NP+ + + + +PED W TGF+
Sbjct: 296 LKSKRKISFWYGARSLREMFYQEDFDQLEAENPNFVWHVALSDPQPEDNWTGYTGFIHNV 355
Query: 266 MIAEHL--FPPSPDNLVLMCGPP 286
+ +L D MCGPP
Sbjct: 356 LYENYLKDHDAPEDCEFYMCGPP 378
>gnl|CDD|99808 cd06212, monooxygenase_like, The oxygenase reductase FAD/NADH
binding domain acts as part of the multi-component
bacterial oxygenases which oxidize hydrocarbons. These
flavoprotein monooxygenases use molecular oxygen as a
substrate and require reduced FAD. One atom of oxygen is
incorportated into the aromatic compond, while the other
is used to form a molecule of water. In contrast
dioxygenases add both atoms of oxygen to the substrate.
Length = 232
Score = 73.5 bits (181), Expect = 4e-15
Identities = 56/229 (24%), Positives = 101/229 (44%), Gaps = 34/229 (14%)
Query: 60 EINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVK 119
+ HD R R L E + GQ++ + T+ R+++ + G ++ ++K
Sbjct: 10 ALTHDIRRLRLRLEEPEPIKFFA-GQYVDI--TVPGTEETRSFSMANTPADPGRLEFIIK 66
Query: 120 VYFKNVHPKFPDGGKMSQFLEN-MKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTN 178
Y GG S FL++ + VG+P+ V+GP Y G +R S+ P
Sbjct: 67 KY---------PGGLFSSFLDDGLAVGDPVTVTGP-----Y---GTCTLR-ESRDRP--- 105
Query: 179 LKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKN 238
+ +I GG+G+ P+L L+R + +D + + ++ +D+ EE+ K
Sbjct: 106 -----IVLIGGGSGMAPLLSLLRDMAASGSDRP-VRFFYGARTARDLFYLEEIAALGEKI 159
Query: 239 PD-QFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
PD F + ++GW TG V+ E++ + V +CGPP
Sbjct: 160 PDFTFIPALSESPDDEGWSGETGLVT-EVVQRNE-ATLAGCDVYLCGPP 206
>gnl|CDD|99786 cd06189, flavin_oxioreductase, NAD(P)H dependent flavin
oxidoreductases use flavin as a substrate in mediating
electron transfer from iron complexes or iron proteins.
Structurally similar to ferredoxin reductases, but with
only 15% sequence identity, flavin reductases reduce
FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a
substrate, rather than a tightly bound prosthetic group
as in flavoenzymes; weaker binding is due to the absence
of a binding site for the AMP moeity of FAD.
Length = 224
Score = 72.2 bits (178), Expect = 8e-15
Identities = 46/159 (28%), Positives = 70/159 (44%), Gaps = 26/159 (16%)
Query: 131 DGGKMSQ-FLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAG 189
GG S E +K + + GP G+F +R S + L +IAG
Sbjct: 64 PGGSFSDYVFEELKENGLVRIEGP--------LGDFFLREDSDR---------PLILIAG 106
Query: 190 GTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYT-- 247
GTG P+ ++ H+ + + L + ++E+D+ L E LE A +P+ Y
Sbjct: 107 GTGFAPIKSILEHLLAQGSKR-PIHLYWGARTEEDLYLDELLEAWAEAHPN---FTYVPV 162
Query: 248 VDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
+ PE+GW+ TG V E + E FP D V CG P
Sbjct: 163 LSEPEEGWQGRTGLV-HEAVLED-FPDLSDFDVYACGSP 199
>gnl|CDD|99795 cd06198, FNR_like_3, NAD(P) binding domain of ferredoxin
reductase-like proteins catalyze electron transfer
between an NAD(P)-binding sub-domain of the alpha/beta
class and a discrete (usually N-terminal) domain, which
varies in orientation with respect to the NAD(P) binding
domain. The N-terminal domain may contain a flavin
prosthetic group (as in flavoenzymes) or use flavin as a
substrate. Ferredoxin is reduced in the final stage of
photosystem I. The flavoprotein Ferredoxin-NADP+
reductase transfers electrons from reduced ferredoxin to
FAD (forming FADH2 via a semiquinone intermediate) which
then transfers a hydride ion to convert NADP+ to NADPH.
Length = 216
Score = 70.7 bits (174), Expect = 2e-14
Identities = 40/158 (25%), Positives = 61/158 (38%), Gaps = 30/158 (18%)
Query: 140 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQL 199
E +K G + V GP GR F + Q+ IAGG GITP L L
Sbjct: 72 ERLKPGTRVTVEGPYGR--------FTFDDRRAR---------QI-WIAGGIGITPFLAL 113
Query: 200 VRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYST 259
+ + ++L + + +D + +EL AA + +D P DG
Sbjct: 114 LEALAARGDAR-PVTLFYCVRDPEDAVFLDELRALAAAAGVVLHV---IDSPSDGR---- 165
Query: 260 GFVSAEMIAEHLFPPSPDNLVLMCGPP--RKTVKNNLK 295
++ E + L P D V CGPP ++ L+
Sbjct: 166 --LTLEQLVRALVPDLADADVWFCGPPGMADALEKGLR 201
>gnl|CDD|225426 COG2871, NqrF, Na+-transporting NADH:ubiquinone oxidoreductase,
subunit NqrF [Energy production and conversion].
Length = 410
Score = 72.5 bits (178), Expect = 3e-14
Identities = 63/258 (24%), Positives = 108/258 (41%), Gaps = 34/258 (13%)
Query: 39 KELKTLVDPDVKVPLKLKEKIEIN---HDTRCFRFELPSAEHVLGLPIGQHLSLSATIND 95
KELK + +VP + I+I H F++P H +L + D
Sbjct: 150 KELKLAIPEGEEVPFRAGGYIQIEAPPHTVNYKDFDIPPEYH--EDWDKFNLFRYVSKVD 207
Query: 96 EFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDG----GKMSQFLENMKVGEPINVS 151
E + RAY+ + E G + L V++ P + G+MS ++ ++K G+ + +S
Sbjct: 208 EPIIRAYSMASYPEEKGIIKLNVRI----ATPPPRNPDAPPGQMSSYIWSLKPGDKVTIS 263
Query: 152 GPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNT 211
GP G EF + ++ I GG G+ PM + K
Sbjct: 264 GPFG--------EFFAKDTDA----------EMVFIGGGAGMAPMRSHIFDQLKRLHSKR 305
Query: 212 KMSLIFANQSEKDILLREELEEAAAKNPD-QFKLWYTVDRPEDGWKYSTGFVSAEMIAEH 270
K+S + +S +++ +E+ ++ A+NP+ + L + PED W TGF+ + +
Sbjct: 306 KISFWYGARSLREMFYQEDFDQLQAENPNFHWHLALSDPLPEDNWDGYTGFIHNVLYENY 365
Query: 271 L--FPPSPDNLVLMCGPP 286
L D MCGPP
Sbjct: 366 LKDHEAPEDCEYYMCGPP 383
>gnl|CDD|99792 cd06195, FNR1, Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 241
Score = 68.0 bits (167), Expect = 3e-13
Identities = 47/212 (22%), Positives = 85/212 (40%), Gaps = 38/212 (17%)
Query: 84 GQHLSLSATINDE-FVARAYTPVTSDEHHGYMD-LVVKVYFKNVHPKFPDGGKMSQFLEN 141
GQ L +D V RAY+ S + ++ ++ V G ++ L
Sbjct: 28 GQFTKLGLPNDDGKLVRRAYSIA-SAPYEENLEFYIILV----------PDGPLTPRLFK 76
Query: 142 MKVGEPINVS-GPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLV 200
+K G+ I V P G L + PP +L ++A GTGI P L ++
Sbjct: 77 LKPGDTIYVGKKPTGFL------------TLDEVPPGK----RLWLLATGTGIAPFLSML 120
Query: 201 R-HITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYS- 258
R + D K+ L+ + +++ ++E+E A + +F+ V R ++ +
Sbjct: 121 RDLEIWERFD--KIVLVHGVRYAEELAYQDEIEALAKQYNGKFRYVPIVSREKENGALTG 178
Query: 259 --TGFVSAEMIAEHL-FPPSPDNLVLM-CGPP 286
+ + + EH P P+ +M CG P
Sbjct: 179 RIPDLIESGELEEHAGLPLDPETSHVMLCGNP 210
>gnl|CDD|99791 cd06194, FNR_N-term_Iron_sulfur_binding, Iron-sulfur binding
ferredoxin reductase (FNR) proteins combine the FAD and
NAD(P) binding regions of FNR with an N-terminal
Iron-Sulfur binding cluster domain. Ferredoxin-NADP+
(oxido)reductase is an FAD-containing enzyme that
catalyzes the reversible electron transfer between
NADP(H) and electron carrier proteins such as ferredoxin
and flavodoxin. Isoforms of these flavoproteins (i.e.
having a non-covalently bound FAD as a prosthetic group)
are present in chloroplasts, mitochondria, and bacteria
in which they participate in a wide variety of redox
metabolic pathways. The C-terminal domain contains most
of the NADP(H) binding residues and the N-terminal
domain interacts non-covalently with the isoalloxazine
rings of the flavin molecule which lies largely in a
large gap betweed the two domains. Ferredoxin-NADP+
reductase first accepts one electron from reduced
ferredoxin to form a flavin semiquinone intermediate.
The enzyme then accepts a second electron to form FADH2
which then transfers two electrons and a proton to NADP+
to form NADPH.
Length = 222
Score = 65.8 bits (161), Expect = 2e-12
Identities = 45/205 (21%), Positives = 82/205 (40%), Gaps = 37/205 (18%)
Query: 84 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENM 142
GQ+++L +AR+Y+P + + ++ ++ G S +L E
Sbjct: 27 GQYVNL---RRAGGLARSYSPTSLPDGDNELEFHIRRK---------PNGAFSGWLGEEA 74
Query: 143 KVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRH 202
+ G + + GP G+ Y R + P L ++ GTG+ P+ + R
Sbjct: 75 RPGHALRLQGPFGQAFY--------RPEYGEGP--------LLLVGAGTGLAPLWGIARA 118
Query: 203 -ITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGF 261
+ + ++ L+ + D+ L L A ++P F+ V G
Sbjct: 119 ALRQGH--QGEIRLVHGARDPDDLYLHPALLWLAREHP-NFRYIPCVSEGSQG----DPR 171
Query: 262 VSAEMIAEHLFPPSPDNLVLMCGPP 286
V A IA HL P + D++V +CG P
Sbjct: 172 VRAGRIAAHLPPLTRDDVVYLCGAP 196
>gnl|CDD|99814 cd06218, DHOD_e_trans, FAD/NAD binding domain in the electron
transfer subunit of dihydroorotate dehydrogenase.
Dihydroorotate dehydrogenases (DHODs) catalyze the only
redox reaction in pyrimidine de novo biosynthesis. They
catalyze the oxidation of (S)-dihydroorotate to orotate
coupled with the reduction of NAD+. In L. lactis, DHOD B
(encoded by pyrDa) is co-expressed with pyrK and both
gene products are required for full activity, as well as
3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Length = 246
Score = 65.3 bits (160), Expect = 3e-12
Identities = 51/188 (27%), Positives = 80/188 (42%), Gaps = 46/188 (24%)
Query: 108 DEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHI 167
D G + L+ KV GK ++ L +K G+ ++V GP LGNG F +
Sbjct: 53 DPEEGTITLLYKVV-----------GKGTRLLSELKAGDELDVLGP------LGNG-FDL 94
Query: 168 RAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILL 227
K + ++ GG GI P+L L + + + K++++ +S D+ L
Sbjct: 95 PDDDGK----------VLLVGGGIGIAPLLFLAKQLAERG---IKVTVLLGFRSADDLFL 141
Query: 228 REELEEAAAKNPDQFKLWYTVDRPEDGWKYST-GFVSAEMIAEHLFPPSPDNLVLMCGPP 286
EE E A+ T +DG T GFV+ +++ E L PD +V CGP
Sbjct: 142 VEEFEALGAEV-----YVAT----DDG-SAGTKGFVT-DLLKELLAEARPD-VVYACGPE 189
Query: 287 R--KTVKN 292
K V
Sbjct: 190 PMLKAVAE 197
>gnl|CDD|131215 TIGR02160, PA_CoA_Oxy5, phenylacetate-CoA oxygenase/reductase, PaaK
subunit. Phenylacetate-CoA oxygenase is comprised of a
five gene complex responsible for the hydroxylation of
phenylacetate-CoA (PA-CoA) as the second catabolic step
in phenylacetic acid (PA) degradation. Although the
exact function of this enzyme has not been determined,
it has been shown to be required for phenylacetic acid
degradation and has been proposed to function in a
multicomponent oxygenase acting on phenylacetate-CoA
[Energy metabolism, Other].
Length = 352
Score = 64.8 bits (158), Expect = 1e-11
Identities = 46/204 (22%), Positives = 81/204 (39%), Gaps = 30/204 (14%)
Query: 52 PLKLKEKIEINHDTRCFRFELPS--AEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDE 109
L + E + D FE+P AE P GQHL+L ++ E + R+Y+ +
Sbjct: 3 RLTVAEVERLTADAVAISFEIPDELAEDYRFAP-GQHLTLRREVDGEELRRSYSICS--- 58
Query: 110 HHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIR 168
++V K + GG S + + ++ G+ + V P+G F
Sbjct: 59 --APAPGEIRVAVKKI-----PGGLFSTWANDEIRPGDTLEVMAPQGL--------FT-- 101
Query: 169 AVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLR 228
P +A G+GITPML + + +L++ N+ ++
Sbjct: 102 --PDLSTPHA---GHYVAVAAGSGITPMLSIAE-TVLAAEPRSTFTLVYGNRRTASVMFA 155
Query: 229 EELEEAAAKNPDQFKLWYTVDRPE 252
EEL + K+P +F L + + R
Sbjct: 156 EELADLKDKHPQRFHLAHVLSREP 179
>gnl|CDD|99807 cd06211, phenol_2-monooxygenase_like, Phenol 2-monooxygenase
(phenol hydroxylase) is a flavoprotein monooxygenase,
able to use molecular oxygen as a substrate in the
microbial degredation of phenol. This protein is encoded
by a single gene and uses a tightly bound FAD cofactor
in the NAD(P)H dependent conversion of phenol and O2 to
catechol and H2O. This group is related to the NAD
binding ferredoxin reductases.
Length = 238
Score = 62.3 bits (152), Expect = 3e-11
Identities = 50/236 (21%), Positives = 97/236 (41%), Gaps = 33/236 (13%)
Query: 54 KLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGY 113
+ E ++ + R +L E + GQ+++L RA++ +S G
Sbjct: 10 TVVEIEDLTPTIKGVRLKLDEPEEIEFQA-GQYVNL--QAPGYEGTRAFSIASSPSDAGE 66
Query: 114 MDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKK 173
++L ++ P G + + +K G+ + +SGP G F +R ++
Sbjct: 67 IELHIR--------LVPGGIATTYVHKQLKEGDELEISGPYGD--------FFVRDSDQR 110
Query: 174 DPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEE 233
+ IAGG+G++ ++ + + D K++L F ++ ++ +E E
Sbjct: 111 P---------IIFIAGGSGLSSPRSMILDLLER-GDTRKITLFFGARTRAELYYLDEFEA 160
Query: 234 AAAKNPDQFKLWYTVDR--PEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPPR 287
+P+ FK + R PE WK TGFV + +H + +CGPP
Sbjct: 161 LEKDHPN-FKYVPALSREPPESNWKGFTGFVH-DAAKKHFKNDFRGHKAYLCGPPP 214
>gnl|CDD|237337 PRK13289, PRK13289, bifunctional nitric oxide
dioxygenase/dihydropteridine reductase 2; Provisional.
Length = 399
Score = 62.9 bits (154), Expect = 5e-11
Identities = 46/173 (26%), Positives = 75/173 (43%), Gaps = 29/173 (16%)
Query: 131 DGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAG 189
GGK+S +L +++ VG+ + ++ P G +F + S P + +I+G
Sbjct: 227 AGGKVSNYLHDHVNVGDVLELAAPAG--------DFFLDVASDT--P-------VVLISG 269
Query: 190 GTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKL--WYT 247
G GITPML ++ + + I A ++ R+E+E AA++P K WY
Sbjct: 270 GVGITPMLSMLETLAAQQP-KRPVHFIHAARNGGVHAFRDEVEALAARHP-NLKAHTWYR 327
Query: 248 VDRPED--GWKY-STGFVSAEMIAEHLFPPSPDNLVLMCGPP--RKTVKNNLK 295
+D G + S G + E + L P PD CGP + V L
Sbjct: 328 EPTEQDRAGEDFDSEGLMDLEWLEAWL--PDPDADFYFCGPVPFMQFVAKQLL 378
>gnl|CDD|131957 TIGR02911, sulfite_red_B, sulfite reductase, subunit B. Members of
this protein family include the B subunit, one of three
subunits, of the anaerobic sulfite reductase of
Salmonella, and close homologs from various Clostridum
species, where the three-gene neighborhood is preserved.
Two such gene clusters are found in Clostridium
perfringens, but it may be that these sets of genes
correspond to the distinct assimilatory and
dissimilatory forms as seen in Clostridium pasteurianum
[Central intermediary metabolism, Sulfur metabolism].
Length = 261
Score = 61.0 bits (148), Expect = 1e-10
Identities = 58/237 (24%), Positives = 97/237 (40%), Gaps = 65/237 (27%)
Query: 107 SDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 166
S GY+DL ++ V GK++ + +K G+ + + GP GNG
Sbjct: 52 SGIGEGYIDLTIR----RV-------GKVTDEVFTLKEGDNLFLRGP------YGNGF-- 92
Query: 167 IRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDIL 226
N K +L ++AGGTG+ P+ +V + K+P + ++LI ++ DIL
Sbjct: 93 --------DVDNYKHKELVVVAGGTGVAPVKGVVEYFVKNPKEIKSLNLILGFKTPDDIL 144
Query: 227 LREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
+E++ E K L T+D E+ +K + G V+ + I E
Sbjct: 145 FKEDIAE--WKGNINLTL--TLDEAEEDYKGNIGLVT-KYIPE----------------- 182
Query: 287 RKTVKNNLKPEDKKEMKTLFSEFNKMKIHEGPPPMINFACKPNLDKLGYSEKLRFSY 343
L +D +E++ I GPP M+ F + L K E + SY
Sbjct: 183 -------LTLKDIEEVQA---------IVVGPPIMMKFTVQELLKKGIKEENIWVSY 223
>gnl|CDD|99804 cd06208, CYPOR_like_FNR, These ferredoxin reductases are related to
the NADPH cytochrome p450 reductases (CYPOR), but lack
the FAD-binding region connecting sub-domain.
Ferredoxin-NADP+ reductase (FNR) is an FAD-containing
enzyme that catalyzes the reversible electron transfer
between NADP(H) and electron carrier proteins, such as
ferredoxin and flavodoxin. Isoforms of these
flavoproteins (i.e. having a non-covalently bound FAD as
a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
between the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2, which then
transfers two electrons and a proton to NADP+ to form
NADPH. CYPOR serves as an electron donor in several
oxygenase systems and is a component of nitric oxide
synthases, sulfite reducatase, and methionine synthase
reductases. CYPOR transfers two electrons from NADPH to
the heme of cytochrome p450 via FAD and FMN. CYPOR has
a C-terminal FNR-like FAD and NAD binding module, an
FMN-binding domain, and an additional connecting domain
(inserted within the FAD binding region) that orients
the FNR and FMN -binding domains. The C-terminal domain
contains most of the NADP(H) binding residues, and the
N-terminal domain interacts non-covalently with the
isoalloxazine rings of the flavin molecule, which lies
largely in a large gap betweed the two domains.
Ferredoxin-NADP+ reductase first accepts one electron
from reduced ferredoxin to form a flavin semiquinone
intermediate. The enzyme then accepts a second electron
to form FADH2 which then transfers two electrons and a
proton to NADP+ to form NADPH.
Length = 286
Score = 60.4 bits (147), Expect = 2e-10
Identities = 32/122 (26%), Positives = 50/122 (40%), Gaps = 20/122 (16%)
Query: 136 SQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 195
S +L ++K G+ + ++GP G+ L DP L MIA GTGI P
Sbjct: 106 SNYLCDLKPGDDVQITGPVGKTMLLPE-----------DPNATL-----IMIATGTGIAP 149
Query: 196 MLQLVRHI----TKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRP 251
+R + D L F + +L +ELE+ + PD F++ Y R
Sbjct: 150 FRSFLRRLFREKHADYKFTGLAWLFFGVPNSDSLLYDDELEKYPKQYPDNFRIDYAFSRE 209
Query: 252 ED 253
+
Sbjct: 210 QK 211
>gnl|CDD|235481 PRK05464, PRK05464, Na(+)-translocating NADH-quinone reductase
subunit F; Provisional.
Length = 409
Score = 61.0 bits (149), Expect = 2e-10
Identities = 59/205 (28%), Positives = 90/205 (43%), Gaps = 39/205 (19%)
Query: 94 NDEFVARAYTPVTSDEHHGYMDLVVKV-----YFKNVHPKFPDGGKMSQFLENMKVGEPI 148
DE V RAY+ E G + L V++ +V P G MS ++ ++K G+ +
Sbjct: 205 VDEPVIRAYSMANYPEEKGIIMLNVRIATPPPGNPDVPP-----GIMSSYIFSLKPGDKV 259
Query: 149 NVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSM--IAGGTGITPMLQLVRHITKD 206
+SGP + GEF K T M I GG G+ PM + K
Sbjct: 260 TISGP-----F---GEFFA------------KDTDAEMVFIGGGAGMAPMRSHIFDQLKR 299
Query: 207 PTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTV---DRPEDGWKYSTGFVS 263
K+S + +S +++ E+ ++ AA+NP+ FK W+ PED W TGF+
Sbjct: 300 LKSKRKISFWYGARSLREMFYVEDFDQLAAENPN-FK-WHVALSDPLPEDNWTGYTGFIH 357
Query: 264 AEMIAEHLFP-PSP-DNLVLMCGPP 286
+ +L +P D MCGPP
Sbjct: 358 NVLYENYLKDHEAPEDCEYYMCGPP 382
>gnl|CDD|181058 PRK07609, PRK07609, CDP-6-deoxy-delta-3,4-glucoseen reductase;
Validated.
Length = 339
Score = 57.2 bits (139), Expect = 3e-09
Identities = 45/216 (20%), Positives = 86/216 (39%), Gaps = 35/216 (16%)
Query: 50 KVPLKLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDE 109
K+P ++ + D + LP+ E + L GQ++ I + R+Y+ +
Sbjct: 102 KLPCRVASLERVAGDVMRLKLRLPATERLQYLA-GQYIEF---ILKDGKRRSYSIANAPH 157
Query: 110 HHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIR 168
G ++L ++ GG + + +K + + + GP G F +R
Sbjct: 158 SGGPLELHIRHM---------PGGVFTDHVFGALKERDILRIEGPLG--------TFFLR 200
Query: 169 AVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLR 228
S K + ++A GTG P+ +V H+ ++L + + +D+ L
Sbjct: 201 EDSDKP---------IVLLASGTGFAPIKSIVEHLRAKGIQR-PVTLYWGARRPEDLYLS 250
Query: 229 EELEEAAAKNPDQFKLWYTV--DRPEDGWKYSTGFV 262
E+ A + P+ F+ V +D W TGFV
Sbjct: 251 ALAEQWAEELPN-FRYVPVVSDALDDDAWTGRTGFV 285
>gnl|CDD|234601 PRK00054, PRK00054, dihydroorotate dehydrogenase electron transfer
subunit; Reviewed.
Length = 250
Score = 52.6 bits (127), Expect = 7e-08
Identities = 52/283 (18%), Positives = 104/283 (36%), Gaps = 87/283 (30%)
Query: 49 VKVPLKLKEKIEINHDTRCFRFE----------------LPSAEHVLGLPIGQHLSLSAT 92
+K+ E EI + + +P E +L PI S+S
Sbjct: 3 KPENMKIVENKEIAPNIYTLVLDGEKVFDMKPGQFVMVWVPGVEPLLERPI----SISD- 57
Query: 93 INDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSG 152
I+ + ++ + G+ ++ L +K G+ +++ G
Sbjct: 58 IDKNEIT----------------ILYRKV-----------GEGTKKLSKLKEGDELDIRG 90
Query: 153 PRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTK 212
P LGNG F + + K + ++ GG G+ P+ +L + + K +
Sbjct: 91 P------LGNG-FDLEEIGGK----------VLLVGGGIGVAPLYELAKELKK---KGVE 130
Query: 213 MSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLF 272
++ + +++ +++ EE + ++ T D DG GFV+ +++ E
Sbjct: 131 VTTVLGARTKDEVIFEEEFAKVG-------DVYVTTD---DGSYGFKGFVT-DVLDELD- 178
Query: 273 PPSPDNLVLMCGPP--RKTVKNNLKPEDKKEMKTLFSEFNKMK 313
D + CGP K V LK +K++ S +MK
Sbjct: 179 -SEYD-AIYSCGPEIMMKKVVEILK---EKKVPAYVSLERRMK 216
>gnl|CDD|226582 COG4097, COG4097, Predicted ferric reductase [Inorganic ion
transport and metabolism].
Length = 438
Score = 51.3 bits (123), Expect = 3e-07
Identities = 39/159 (24%), Positives = 71/159 (44%), Gaps = 30/159 (18%)
Query: 140 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQL 199
+N+KVG + V GP G+ + G Q+ IAGG GITP + +
Sbjct: 292 DNLKVGTKLEVDGPYGKFDF-ERGLNT----------------QV-WIAGGIGITPFISM 333
Query: 200 VRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYST 259
+ + + +D + L + +++ ++ L EEL A K P+ L + +D +D
Sbjct: 334 LFTLAERKSDPP-VHLFYCSRNWEEALYAEELRALAQKLPN-VVL-HIIDSSKD------ 384
Query: 260 GFVSAEMIAEHLFPPSPDNLVLMCGPP--RKTVKNNLKP 296
G++ E + + P + V CGP +++ +LK
Sbjct: 385 GYLDQEDLERYPDRPRTRS-VFFCGPIKMMDSLRRDLKK 422
>gnl|CDD|99816 cd06220, DHOD_e_trans_like2, FAD/NAD binding domain in the electron
transfer subunit of dihydroorotate dehydrogenase-like
proteins. Dihydroorotate dehydrogenases (DHODs) catalyze
the only redox reaction in pyrimidine de novo
biosynthesis. They catalyze the oxidation of
(S)-dihydroorotate to orotate coupled with the reduction
of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is
co-expressed with pyrK and both gene products are
required for full activity, as well as 3 cofactors: FMN,
FAD, and an [2Fe-2S] cluster.
Length = 233
Score = 48.8 bits (117), Expect = 1e-06
Identities = 32/153 (20%), Positives = 62/153 (40%), Gaps = 36/153 (23%)
Query: 133 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
G+ + L ++K G+ + + GP G V K + +I GG G
Sbjct: 59 GEATSALHDLKEGDKLGIRGPYGN---------GFELVGGK----------VLLIGGGIG 99
Query: 193 ITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPE 252
I P+ L + K ++++ ++++++L + L ++ +L T D
Sbjct: 100 IAPLAPLAERLKK----AADVTVLLGARTKEELLFLDRLRKSD-------ELIVTTD--- 145
Query: 253 DGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGP 285
DG GFV+ + + L D + +CGP
Sbjct: 146 DGSYGFKGFVTDLL--KELDLEEYD-AIYVCGP 175
>gnl|CDD|99809 cd06213, oxygenase_e_transfer_subunit, The oxygenase reductase
FAD/NADH binding domain acts as part of the
multi-component bacterial oxygenases which oxidize
hydrocarbons. Electron transfer is from NADH via FAD (in
the oxygenase reductase) and an [2FE-2S] ferredoxin
center (fused to the FAD/NADH domain and/or discrete) to
the oxygenase. Dioxygenases add both atoms of oxygen to
the substrate while mono-oxygenases add one atom to the
substrate and one atom to water. In dioxygenases, Class
I enzymes are 2 component, containing a reductase with
Rieske type [2Fe-2S] redox centers and an oxygenase.
Class II are 3 component, having discrete flavin and
ferredoxin proteins and an oxygenase. Class III have 2
[2Fe-2S] centers, one fused to the flavin domain and the
other separate.
Length = 227
Score = 47.7 bits (114), Expect = 2e-06
Identities = 45/159 (28%), Positives = 74/159 (46%), Gaps = 26/159 (16%)
Query: 132 GGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGG 190
GG S +L + GE + V GP G+F +R D P + IAGG
Sbjct: 68 GGAFSGWLFGADRTGERLTVRGP--------FGDFWLRP---GDAP-------ILCIAGG 109
Query: 191 TGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTV-D 249
+G+ P+L ++ T ++L+F ++++D+ +E+ AA+ +F+ + +
Sbjct: 110 SGLAPILAILEQARAAGTKRD-VTLLFGARTQRDLYALDEIAAIAARWRGRFRFIPVLSE 168
Query: 250 RPEDG-WKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPPR 287
P D WK + G V+ E IAE L + L CGPP
Sbjct: 169 EPADSSWKGARGLVT-EHIAEVLLAATEAYL---CGPPA 203
>gnl|CDD|183350 PRK11872, antC, anthranilate dioxygenase reductase; Provisional.
Length = 340
Score = 48.2 bits (115), Expect = 3e-06
Identities = 37/158 (23%), Positives = 65/158 (41%), Gaps = 24/158 (15%)
Query: 130 PDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIA 188
PDG MS +L E +VG+ I P G F++R V + L +A
Sbjct: 176 PDGV-MSNYLRERCQVGDEILFEAPLG--------AFYLREVERP----------LVFVA 216
Query: 189 GGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTV 248
GGTG++ L ++ + + + L + + D+ + L A + P+ F+ V
Sbjct: 217 GGTGLSAFLGMLDELAEQGCSPP-VHLYYGVRHAADLCELQRLAAYAERLPN-FRYHPVV 274
Query: 249 DRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPP 286
+ W+ G++ L + D + +CGPP
Sbjct: 275 SKASADWQGKRGYIHEHFDKAQLRDQAFD--MYLCGPP 310
>gnl|CDD|215586 PLN03116, PLN03116, ferredoxin--NADP+ reductase; Provisional.
Length = 307
Score = 46.2 bits (110), Expect = 1e-05
Identities = 30/122 (24%), Positives = 48/122 (39%), Gaps = 19/122 (15%)
Query: 133 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
G S FL + K G+ + ++GP G++ L P + T + M+A GTG
Sbjct: 123 GVCSNFLCDAKPGDKVQITGPSGKVMLL--------------PEEDPNATHI-MVATGTG 167
Query: 193 ITPMLQLVRHITKDPTDNTKMS----LIFANQSEKDILLREELEEAAAKNPDQFKLWYTV 248
I P +R + + K L + +L +E E PD F+ Y +
Sbjct: 168 IAPFRGFLRRMFMEDVPAFKFGGLAWLFLGVANSDSLLYDDEFERYLKDYPDNFRYDYAL 227
Query: 249 DR 250
R
Sbjct: 228 SR 229
>gnl|CDD|215585 PLN03115, PLN03115, ferredoxin--NADP(+) reductase; Provisional.
Length = 367
Score = 46.5 bits (110), Expect = 1e-05
Identities = 41/160 (25%), Positives = 67/160 (41%), Gaps = 24/160 (15%)
Query: 133 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
G S FL ++K G + ++GP G+ + KDP + M+A GTG
Sbjct: 183 GVCSNFLCDLKPGAEVKITGPVGK-----------EMLMPKDPNATI-----IMLATGTG 226
Query: 193 ITPMLQLVRHITKDPTDNTKMS----LIFANQSEKDILLREELEEAAAKNPDQFKLWYTV 248
I P + + + D+ K + L + +L +EE E+ K P+ F+L + V
Sbjct: 227 IAPFRSFLWKMFFEKHDDYKFNGLAWLFLGVPTSSSLLYKEEFEKMKEKAPENFRLDFAV 286
Query: 249 DRPEDGWKYSTGFVSAEMI--AEHLFP--PSPDNLVLMCG 284
R + K ++ M AE L+ + V MCG
Sbjct: 287 SREQTNAKGEKMYIQTRMAEYAEELWELLKKDNTYVYMCG 326
>gnl|CDD|99779 cd06182, CYPOR_like, NADPH cytochrome p450 reductase (CYPOR) serves
as an electron donor in several oxygenase systems and is
a component of nitric oxide synthases and methionine
synthase reductases. CYPOR transfers two electrons from
NADPH to the heme of cytochrome p450 via FAD and FMN.
CYPOR has a C-terminal ferredoxin reducatase (FNR)- like
FAD and NAD binding module, an FMN-binding domain, and
an additional conecting domain (inserted within the FAD
binding region) that orients the FNR and FMN binding
domains. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria and participate in a wide
variety of redox metabolic pathways. The C-terminal
domain contains most of the NADP(H) binding residues and
the N-terminal domain interacts non-covalently with the
isoalloxazine rings of the flavin molecule which lies
largely in a large gap betweed the two domains.
Ferredoxin-NADP+ reductase first accepts one electron
from reduced ferredoxin to form a flavin semiquinone
intermediate. The enzyme then accepts a second electron
to form FADH2, which then transfers two electrons and a
proton to NADP+ to form NADPH.
Length = 267
Score = 45.4 bits (108), Expect = 1e-05
Identities = 59/262 (22%), Positives = 90/262 (34%), Gaps = 44/262 (16%)
Query: 64 DTRCFRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYT-PVTSDEHHGYMDLVVKVYF 122
TR F+L VL G HL + N R Y+ + D G + L V+V
Sbjct: 16 STRHLEFDLSGNS-VLKYQPGDHLGVIP-PNP-LQPRYYSIASSPDVDPGEVHLCVRV-- 70
Query: 123 KNVHPKFPDG----GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTN 178
V + P G G S FL +++G + V F P +
Sbjct: 71 --VSYEAPAGRIRKGVCSNFLAGLQLGAKVTVFIRP-------APSFR--------LPKD 113
Query: 179 LKVTQLSMIAGGTGITPMLQLVRH---ITKDPTDNTKMSLIF-ANQSEKDILLREELEEA 234
T + M+ GTGI P ++ + + L F D L REEL+E
Sbjct: 114 PT-TPIIMVGPGTGIAPFRGFLQERAALRANGKARGPAWLFFGCRNFASDYLYREELQE- 171
Query: 235 AAKNPDQFKLWYTVDRPEDGWK-YSTGFV--SAEMIAEHLFPPSPDNLVLMCGP---PRK 288
A K+ +L R + K Y + AE + L + + +CG K
Sbjct: 172 ALKDGALTRLDVAFSREQAEPKVYVQDKLKEHAEELRRLL---NEGAHIYVCGDAKSMAK 228
Query: 289 TVKNNLK--PEDKKEMKTLFSE 308
V++ L + +E
Sbjct: 229 DVEDALVKIIAKAGGVDESDAE 250
>gnl|CDD|99789 cd06192, DHOD_e_trans_like, FAD/NAD binding domain (electron
transfer subunit) of dihydroorotate dehydrogenase-like
proteins. Dihydroorotate dehydrogenases (DHODs) catalyze
the only redox reaction in pyrimidine de novo
biosynthesis. They catalyze the oxidation of
(S)-dihydroorotate to orotate coupled with the reduction
of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is
co-expressed with pyrK and both gene products are
required for full activity, as well as NAD binding.
NAD(P) binding domain of ferredoxin reductase-like
proteins catalyze electron transfer between an
NAD(P)-binding domain of the alpha/beta class and a
discrete (usually N-terminal) domain which vary in
orientation with respect to the NAD(P) binding domain.
The N-terminal domain may contain a flavin prosthetic
group (as in flavoenzymes) or use flavin as a substrate.
Ferredoxin is reduced in the final stage of photosystem
I. The flavoprotein Ferredoxin-NADP+ reductase transfers
electrons from reduced ferredoxin to FAD (forming FADH2
via a semiquinone intermediate) which then transfers a
hydride ion to convert NADP+ to NADPH.
Length = 243
Score = 45.4 bits (108), Expect = 1e-05
Identities = 43/235 (18%), Positives = 83/235 (35%), Gaps = 49/235 (20%)
Query: 55 LKEKIEINHDTRCFRFELPS-AEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGY 113
+ +K ++ + + P A GQ + L + + D G
Sbjct: 1 IVKKEQLEPNLVLLTIKAPLAARLFR---PGQFVFLRNFESPGLERIPLSLAGVDPEEGT 57
Query: 114 MDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKK 173
+ L+V++ G ++ + +K GE ++V GP LGNG
Sbjct: 58 ISLLVEI-----------RGPKTKLIAELKPGEKLDVMGP------LGNGFEG------- 93
Query: 174 DPPTNLKVTQLSM-IAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELE 232
K + +AGG G+ P+L + + K + K++++ + K+ L E E
Sbjct: 94 -----PKKGGTVLLVAGGIGLAPLLPIAK---KLAANGNKVTVLAGAKKAKEEFLDEYFE 145
Query: 233 EAAAKNPDQFKLWYTVDRPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPPR 287
A +T D DG G V+ ++ P + +++ G
Sbjct: 146 LPAD------VEIWTTD---DGELGLEGKVT---DSDKPIPLEDVDRIIVAGSDI 188
>gnl|CDD|236247 PRK08345, PRK08345, cytochrome-c3 hydrogenase subunit gamma;
Provisional.
Length = 289
Score = 44.8 bits (106), Expect = 3e-05
Identities = 37/167 (22%), Positives = 67/167 (40%), Gaps = 32/167 (19%)
Query: 133 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
G+++ + +K G+ + V GP GNG F P ++ L +IAGG G
Sbjct: 76 GRVTTVIHRLKEGDIVGVRGP------YGNG-F---------PVDEMEGMDLLLIAGGLG 119
Query: 193 ITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREE----LEEAAAKNPDQFKLWYTV 248
+ P+ ++ + + ++LI+ + +D+L +E L EA Q +
Sbjct: 120 MAPLRSVLLYAMDNRWKYGNITLIYGAKYYEDLLFYDELIKDLAEAENVKIIQ-SVTRDP 178
Query: 249 DRP-----EDGW--KYSTGFVSAEMIAEHLFPPSPDN-LVLMCGPPR 287
+ P G+ + G V+ + P N +CGPP
Sbjct: 179 EWPGCHGLPQGFIERVCKGVVTDLFREANT---DPKNTYAAICGPPV 222
>gnl|CDD|99794 cd06197, FNR_like_2, FAD/NAD(P) binding domain of ferredoxin
reductase-like proteins. Ferredoxin reductase (FNR) was
intially identified as a chloroplast reductase activity,
catalyzing the electron transfer from reduced
iron-sulfur protein ferredoxin to NADP+ as the final
step in the electron transport mechanism of photosystem
I. FNR transfers electrons from reduced ferredoxin to
FAD (forming FADH2 via a semiquinone intermediate) and
then transfers a hydride ion to convert NADP+ to NADPH.
FNR has since been shown to utilize a variety of
electron acceptors and donors and have a variety of
physiological functions in a variety of organisms
including nitrogen assimilation, dinitrogen fixation,
steroid hydroxylation, fatty acid metabolism, oxygenase
activity, and methane assimilation. FNR has an
NAD(P)-binding sub-domain of the alpha/beta class and a
discrete (usually N-terminal) flavin sub-domain which
varies in orientation with respect to the NAD(P)
binding domain. The N-terminal moeity may contain a
flavin prosthetic group (as in flavoenzymes) or use
flavin as a substrate. Because flavins such as FAD can
exist in oxidized, semiquinone (one-electron reduced),
or fully reduced hydroquinone forms, FNR can interact
with one and two electron carriers. FNR has a strong
preference for NADP(H) vs NAD(H).
Length = 220
Score = 43.1 bits (102), Expect = 7e-05
Identities = 43/199 (21%), Positives = 70/199 (35%), Gaps = 43/199 (21%)
Query: 54 KLKEKIEINHDTRCFRFELPSAEHVLGLPIGQHLSLS-----------------ATINDE 96
E I F FEL + V GQ+++L ++ND+
Sbjct: 1 IKSEVITPTLTR--FTFELSPPDVVGKWTPGQYITLDFSSELDSGYSHMADDDPQSLNDD 58
Query: 97 FVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGR 156
FV R +T ++ H D K G ++ FL +
Sbjct: 59 FV-RTFTVSSAPPHDPATDEFEITVRKK--------GPVTGFLFQV------ARRLREQG 103
Query: 157 LA--YLG-NGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKM 213
L LG GEF + P ++ IAGG GITP L ++R I +
Sbjct: 104 LEVPVLGVGGEFTLSL------PGEGAERKMVWIAGGVGITPFLAMLRAILSSRNTTWDI 157
Query: 214 SLIFANQSEKDILLREELE 232
+L+++ + + L+ + L
Sbjct: 158 TLLWSLREDDLPLVMDTLV 176
>gnl|CDD|99782 cd06185, PDR_like, Phthalate dioxygenase reductase (PDR) is an
FMN-dependent reductase that mediates electron transfer
from NADH to FMN to an iron sulfur cluster. PDR has an
an N-terminal ferrredoxin reductase (FNR)-like NAD(H)
binding domain and a C-terminal iron-sulfur [2Fe-2S]
cluster domain. Although structurally homologous to FNR,
PDR binds FMN rather than FAD in it's FNR-like domain.
Electron transfer between pyrimidines and iron-sulfur
clusters (Rieske center [2Fe-2S]) or heme groups is
mediated by flavins in respiration, photosynthesis, and
oxygenase systems. Type I dioxygenase systems, including
the hydroxylate phthalate system, have 2 components, a
monomeric reductase consisting of a flavin and a 2Fe-2S
center and a multimeric oxygenase. In contrast to other
Rieske dioxygenases the ferredoxin like domain is C-,
not N-terminal.
Length = 211
Score = 42.1 bits (100), Expect = 1e-04
Identities = 38/158 (24%), Positives = 58/158 (36%), Gaps = 41/158 (25%)
Query: 132 GGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGG 190
GG S+++ E ++VG+ + VS PR H+ +IAGG
Sbjct: 68 GG--SRYMHELLRVGDELEVSAPRNLFPLDEAARRHL------------------LIAGG 107
Query: 191 TGITPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWY-TVD 249
GITP+L + R + D L +A +S +D +EL D+ L +
Sbjct: 108 IGITPILSMARALAARGAD---FELHYAGRSREDAAFLDELAALPG---DRVHLHFDDEG 161
Query: 250 RPEDGWKYSTGFVSAEMIAEHLFPPSPDNLVLMCGPPR 287
D +A L P V +CGP
Sbjct: 162 GRLD-------------LAALLAAPPAGTHVYVCGPEG 186
>gnl|CDD|223446 COG0369, CysJ, Sulfite reductase, alpha subunit (flavoprotein)
[Inorganic ion transport and metabolism].
Length = 587
Score = 39.7 bits (93), Expect = 0.002
Identities = 29/112 (25%), Positives = 42/112 (37%), Gaps = 22/112 (19%)
Query: 136 SQFLENMKV-GEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGIT 194
S +L ++ G+ I V N F + +DP T + MI GTGI
Sbjct: 410 SGYLADLLEEGDTIPVFVQP-------NKNFRL----PEDPETPI-----IMIGPGTGIA 453
Query: 195 PMLQLVRH-ITKDPTDNTKMSLIFANQ-SEKDILLREELEEAAAKNPDQFKL 244
P V+ K L F + +D L +EE EE K+ +L
Sbjct: 454 PFRAFVQERAANGAEG--KNWLFFGCRHFTEDFLYQEEWEE-YLKDGVLTRL 502
>gnl|CDD|99803 cd06207, CyPoR_like, NADPH cytochrome p450 reductase (CYPOR) serves
as an electron donor in several oxygenase systems and is
a component of nitric oxide synthases and methionine
synthase reductases. CYPOR transfers two electrons from
NADPH to the heme of cytochrome p450 via FAD and FMN.
Ferredoxin-NADP+ (oxido)reductase is an FAD-containing
enzyme that catalyzes the reversible electron transfer
between NADP(H) and electron carrier proteins such as
ferredoxin and flavodoxin. Isoforms of these
flavoproteins (i.e. having a non-covalently bound FAD as
a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 382
Score = 39.2 bits (92), Expect = 0.002
Identities = 26/106 (24%), Positives = 42/106 (39%), Gaps = 23/106 (21%)
Query: 133 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
G S +L +KVG+ + V + P + K + M+ GTG
Sbjct: 199 GLCSSYLAGLKVGQRVTVFIKKSSFKL----------------PKDPKKP-IIMVGPGTG 241
Query: 193 ITPMLQLVRH----ITKDPTDNTKMSLIFANQSE-KDILLREELEE 233
+ P ++ + + P + L F + E KD L +EELEE
Sbjct: 242 LAPFRAFLQERAALLAQGPEIG-PVLLYFGCRHEDKDYLYKEELEE 286
>gnl|CDD|236735 PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent;
Provisional.
Length = 332
Score = 38.5 bits (90), Expect = 0.003
Identities = 38/160 (23%), Positives = 66/160 (41%), Gaps = 30/160 (18%)
Query: 131 DGGKMSQFLEN-MKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAG 189
D G SQ+L +K G+ + +S G EF K L ++A
Sbjct: 77 DDGVGSQWLTRDVKRGDYLWLSDAMG--------EF---TCDDKAEDKYL------LLAA 119
Query: 190 GTGITPMLQLVRHITKD-PTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTV 248
G G+TP++ + R + K+ P + +IF ++ +D++ +E + + P Q L
Sbjct: 120 GCGVTPIMSMRRWLLKNRPQ--ADVQVIFNVRTPQDVIFADEWRQLKQRYP-QLNLTLVA 176
Query: 249 DRPEDGWKYSTGFVSAEMIAEHLFPPSPD---NLVLMCGP 285
+ GF++ + E L PD V+ CGP
Sbjct: 177 ENNATE-----GFIAGRLTRELLQQAVPDLASRTVMTCGP 211
>gnl|CDD|99798 cd06201, SiR_like2, Cytochrome p450- like alpha subunits of E. coli
sulfite reductase (SiR) multimerize with beta subunits
to catalyze the NADPH dependent reduction of sulfite to
sulfide. Beta subunits have an Fe4S4 cluster and a
siroheme, while the alpha subunits (cysJ gene) are of
the cytochrome p450 (CyPor) family having FAD and FMN as
prosthetic groups and utilizing NADPH. Cypor (including
cyt -450 reductase, nitric oxide synthase, and
methionine synthase reductase) are ferredoxin reductase
(FNR)-like proteins with an additional N-terminal FMN
domain and a connecting sub-domain inserted within the
flavin binding portion of the FNR-like domain. The
connecting domain orients the N-terminal FMN domain with
the C-terminal FNR domain. NADPH cytochrome p450
reductase (CYPOR) serves as an electron donor in several
oxygenase systems and is a component of nitric oxide
synthases and methionine synthase reductases. CYPOR
transfers two electrons from NADPH to the heme of
cytochrome p450 via FAD and FMN. Ferredoxin-NADP+
(oxido)reductase is an FAD-containing enzyme that
catalyzes the reversible electron transfer between
NADP(H) and electron carrier proteins such as ferredoxin
and flavodoxin. Isoforms of these flavoproteins (i.e.
having a non-covalently bound FAD as a prosthetic group)
are present in chloroplasts, mitochondria, and bacteria
in which they participate in a wide variety of redox
metabolic pathways. The C-terminal domain contains most
of the NADP(H) binding residues and the N-terminal
domain interacts non-covalently with the isoalloxazine
rings of the flavin molecule which lies largely in a
large gap betweed the two domains. Ferredoxin-NADP+
reductase first accepts one electron from reduced
ferredoxin to form a flavin semiquinone intermediate.
The enzyme then accepts a second electron to form FADH2
which then transfers two electrons and a proton to NADP+
to form NADPH.
Length = 289
Score = 37.7 bits (88), Expect = 0.005
Identities = 45/203 (22%), Positives = 68/203 (33%), Gaps = 48/203 (23%)
Query: 49 VKVPLKLKE----KIEINHDTRCFRFELP-SAEHVLGLP---IGQHLSLSATINDEFVAR 100
L+L E + T RF+ GLP G L + +D V R
Sbjct: 44 RTKALELVERKDYGAAVQAPTAILRFKPAKRKLSGKGLPSFEAGDLLGILPPGSD--VPR 101
Query: 101 AYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYL 160
Y+ +S G++++ V+ HP GG S +L +K G+ I
Sbjct: 102 FYSLASSSSD-GFLEICVRK-----HP----GGLCSGYLHGLKPGDTIKAFIRP------ 145
Query: 161 GNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTK---MSLIF 217
N F P + +I GTGI P+ +R N M L +
Sbjct: 146 -NPSFR--------PAK--GAAPVILIGAGTGIAPLAGFIRA-------NAARRPMHLYW 187
Query: 218 -ANQSEKDILLREELEEAAAKNP 239
D L +EL++ A
Sbjct: 188 GGRDPASDFLYEDELDQYLADGR 210
>gnl|CDD|99790 cd06193, siderophore_interacting, Siderophore interacting proteins
share the domain structure of the ferredoxin reductase
like family. Siderophores are produced in various
bacteria (and some plants) to extract iron from hosts.
Binding constants are high, so iron can be pilfered from
transferrin and lactoferrin for bacterial uptake,
contributing to pathogen virulence. Ferredoxin reductase
(FNR), an FAD and NAD(P) binding protein, was intially
identified as a chloroplast reductase activity,
catalyzing the electron transfer from reduced
iron-sulfur protein ferredoxin to NADP+ as the final
step in the electron transport mechanism of photosystem
I. FNR transfers electrons from reduced ferredoxin to
FAD (forming FADH2 via a semiquinone intermediate) and
then transfers a hydride ion to convert NADP+ to NADPH.
FNR has since been shown to utilize a variety of
electron acceptors and donors and has a variety of
physiological functions including nitrogen assimilation,
dinitrogen fixation, steroid hydroxylation, fatty acid
metabolism, oxygenase activity, and methane assimilation
in a variety of organisms. FNR has an NAD(P)-binding
sub-domain of the alpha/beta class and a discrete
(usually N-terminal) flavin sub-domain which vary in
orientation with respect to the NAD(P) binding domain.
The N-terminal moeity may contain a flavin prosthetic
group (as in flavoenzymes) or use flavin as a substrate.
Because flavins such as FAD can exist in oxidized,
semiquinone (one-electron reduced), or fully reduced
hydroquinone forms, FNR can interact with one and two
electron carriers. FNR has a strong preference for
NADP(H) vs NAD(H).
Length = 235
Score = 37.2 bits (87), Expect = 0.006
Identities = 17/93 (18%), Positives = 30/93 (32%), Gaps = 10/93 (10%)
Query: 68 FRFELPSAEHVLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDL-VVKVYFKNVH 126
+ P + V R YT D G +D+ V +H
Sbjct: 33 VKLLFPDPGQAPPVLPVLGRRRWPPEEPRPVMRTYTVRRFDPEAGELDIDFV------LH 86
Query: 127 PKFPDGGKMSQFLENMKVGEPINVSGPRGRLAY 159
D G S++ + + G+ + ++GP G
Sbjct: 87 G---DEGPASRWAASAQPGDTLGIAGPGGSFLP 116
>gnl|CDD|203841 pfam08030, NAD_binding_6, Ferric reductase NAD binding domain.
Length = 149
Score = 35.8 bits (83), Expect = 0.011
Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 186 MIAGGTGITPMLQLVRHITK--DPTDNTKMSLIFANQSEKDI-LLREELEE 233
++AGG GITP + +++ + K+ +A + + ++ L E
Sbjct: 6 LVAGGIGITPFISILKDLGNKSKALKTKKIKFYWAVRDLSSLEWFKDVLNE 56
>gnl|CDD|99783 cd06186, NOX_Duox_like_FAD_NADP, NADPH oxidase (NOX) catalyzes the
generation of reactive oxygen species (ROS) such as
superoxide and hydrogen peroxide. ROS were originally
identified as bactericidal agents in phagocytes, but are
now also implicated in cell signaling and metabolism.
NOX has a 6-alpha helix heme-binding transmembrane
domain fused to a flavoprotein with the nucleotide
binding domain located in the cytoplasm. Duox enzymes
link a peroxidase domain to the NOX domain via a single
transmembrane and EF-hand Ca2+ binding sites. The
flavoprotein module has a ferredoxin like FAD/NADPH
binding domain. In classical phagocytic NOX2, electron
transfer occurs from NADPH to FAD to the heme of cytb to
oxygen leading to superoxide formation.
Length = 210
Score = 35.7 bits (83), Expect = 0.019
Identities = 13/54 (24%), Positives = 30/54 (55%), Gaps = 4/54 (7%)
Query: 186 MIAGGTGITPMLQLVRHITK---DPTDNTKMSLIFANQSEKDIL-LREELEEAA 235
++AGG+GIT +L ++R + + + ++ L++ + +D+ +EL A
Sbjct: 111 LVAGGSGITFVLPILRDLLRRSSKTSRTRRVKLVWVVRDREDLEWFLDELRAAQ 164
>gnl|CDD|236142 PRK08051, fre, FMN reductase; Validated.
Length = 232
Score = 35.2 bits (82), Expect = 0.028
Identities = 33/129 (25%), Positives = 54/129 (41%), Gaps = 25/129 (19%)
Query: 137 QFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG---I 193
+E + I V P +G+ +R S++ P L +IAGGTG
Sbjct: 75 AVMERILKDGEIEVDIP--------HGDAWLREESER--P-------LLLIAGGTGFSYA 117
Query: 194 TPMLQLVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPED 253
+L + + P +L + + E + +ELE A K+P V++PE+
Sbjct: 118 RSILL--TALAQGPNRPI--TLYWGGREEDHLYDLDELEALALKHP-NLHFVPVVEQPEE 172
Query: 254 GWKYSTGFV 262
GW+ TG V
Sbjct: 173 GWQGKTGTV 181
>gnl|CDD|99800 cd06203, methionine_synthase_red, Human methionine synthase
reductase (MSR) restores methionine sythase which is
responsible for the regeneration of methionine from
homocysteine, as well as the coversion of
methyltetrahydrofolate to tetrahydrofolate. In MSR,
electrons are transferred from NADPH to FAD to FMN to
cob(II)alamin. MSR resembles proteins of the cytochrome
p450 family including nitric oxide synthase, the alpha
subunit of sulfite reductase, but contains an extended
hinge region. NADPH cytochrome p450 reductase (CYPOR)
serves as an electron donor in several oxygenase systems
and is a component of nitric oxide synthases and
methionine synthase reductases. CYPOR transfers two
electrons from NADPH to the heme of cytochrome p450 via
FAD and FMN. CYPORs resemble ferredoxin reductase (FNR)
but have a connecting subdomain inserted within the
flavin binding region, which helps orient the FMN
binding doamin with the FNR module. Ferredoxin-NADP+
(oxido)reductase is an FAD-containing enzyme that
catalyzes the reversible electron transfer between
NADP(H) and electron carrier proteins such as ferredoxin
and flavodoxin. Isoforms of these flavoproteins (i.e.
having a non-covalently bound FAD as a prosthetic group)
are present in chloroplasts, mitochondria, and bacteria
in which they participate in a wide variety of redox
metabolic pathways. The C-terminal domain contains most
of the NADP(H) binding residues and the N-terminal
domain interacts non-covalently with the isoalloxazine
rings of the flavin molecule which lies largely in a
large gap betweed the two domains. Ferredoxin-NADP+
reductase first accepts one electron from reduced
ferredoxin to form a flavin semiquinone intermediate.
The enzyme then accepts a second electron to form FADH2
which then transfers two electrons and a proton to NADP+
to form NADPH.
Length = 398
Score = 35.4 bits (82), Expect = 0.037
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 175 PPTNLKVTQLSMIAGGTGITP---MLQLVRHITKDPTDNT--KMSLIF-ANQSEKDILLR 228
PP +L+ + M+ GTG+ P LQ + + T+ + L F ++D L R
Sbjct: 236 PPDDLRRPII-MVGPGTGVAPFLGFLQHREKLKESHTETVFGEAWLFFGCRHRDRDYLFR 294
Query: 229 EELEE 233
+ELEE
Sbjct: 295 DELEE 299
>gnl|CDD|215453 PLN02844, PLN02844, oxidoreductase/ferric-chelate reductase.
Length = 722
Score = 34.8 bits (80), Expect = 0.071
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 179 LKVTQLSMIAGGTGITPMLQLVRHITKDPTDN----TKMSLIFANQSEKDILL 227
L+ L ++AGG GITP L +++ I + ++ LI+ + +DI L
Sbjct: 421 LRYDSLLLVAGGIGITPFLSILKEIASQSSSRYRFPKRVQLIYVVKKSQDICL 473
>gnl|CDD|99802 cd06206, bifunctional_CYPOR, These bifunctional proteins fuse
N-terminal cytochrome p450 with a cytochrome p450
reductase (CYPOR). NADPH cytochrome p450 reductase
serves as an electron donor in several oxygenase systems
and is a component of nitric oxide synthases and
methionine synthase reductases. CYPOR transfers two
electrons from NADPH to the heme of cytochrome p450 via
FAD and FMN. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 384
Score = 33.8 bits (78), Expect = 0.12
Identities = 33/110 (30%), Positives = 48/110 (43%), Gaps = 29/110 (26%)
Query: 136 SQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 195
S +L +++ G+ I+VS R + F PP++ T L MIA GTG+ P
Sbjct: 200 SSYLSSLRPGDSIHVS-VR-----PSHSAFR--------PPSDPS-TPLIMIAAGTGLAP 244
Query: 196 M---LQ----LVRHITKDPTDNTKMSLIFA--NQSEKDILLREELEEAAA 236
LQ L+ K +L+F + D L R+ELEE A
Sbjct: 245 FRGFLQERAALLAQGRKLAP-----ALLFFGCRHPDHDDLYRDELEEWEA 289
>gnl|CDD|235745 PRK06214, PRK06214, sulfite reductase; Provisional.
Length = 530
Score = 33.5 bits (77), Expect = 0.14
Identities = 17/51 (33%), Positives = 21/51 (41%), Gaps = 6/51 (11%)
Query: 186 MIAGGTGITPMLQLVRH--ITKDPTDNTKMSLIFANQ-SEKDILLREELEE 233
M+ GTGI P + TK P N L F +Q S D +EL
Sbjct: 388 MVGPGTGIAPFRAFLHERAATKAPGRNW---LFFGHQRSATDFFYEDELNG 435
>gnl|CDD|215165 PLN02292, PLN02292, ferric-chelate reductase.
Length = 702
Score = 33.3 bits (76), Expect = 0.19
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 9/66 (13%)
Query: 169 AVSKKDP--PTN---LKVTQLSMIAGGTGITPMLQLVRHITKDPTDNT----KMSLIFAN 219
AVS + P P + L+ L M++GG+GITP + ++R + + T K++LI A
Sbjct: 414 AVSVEGPYGPASTDFLRHESLVMVSGGSGITPFISIIRDLIYTSSTETCKIPKITLICAF 473
Query: 220 QSEKDI 225
++ D+
Sbjct: 474 KNSSDL 479
>gnl|CDD|225250 COG2375, ViuB, Siderophore-interacting protein [Inorganic ion
transport and metabolism].
Length = 265
Score = 32.8 bits (75), Expect = 0.21
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 98 VARAYTPVTSDEHHGYMDL-VVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGR 156
R YT D G +D+ V +H +GG S++ + G+ + + GPRG
Sbjct: 86 PQRTYTIRAVDAAAGELDVDFV------LHG---EGGPASRWARTAQPGDTLTIMGPRGS 136
Query: 157 L 157
L
Sbjct: 137 L 137
>gnl|CDD|171815 PRK12911, PRK12911, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 1403
Score = 32.9 bits (75), Expect = 0.25
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 124 NVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 166
NVH F + F++N+ GEP +V RL +G EF
Sbjct: 89 NVH--FKLAEDAALFIDNVVHGEP-SVPIKSARLYVVGYSEFT 128
>gnl|CDD|219701 pfam08021, FAD_binding_9, Siderophore-interacting FAD-binding
domain.
Length = 116
Score = 30.7 bits (70), Expect = 0.36
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 10/58 (17%)
Query: 100 RAYTPVTSDEHHGYMDL-VVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGR 156
R YT + D G +D+ V +H D G S++ + G+ + + GP G
Sbjct: 67 RTYTVRSFDPAAGELDIDFV------LHG---DEGPASRWAARAQPGDTLGIGGPGGS 115
>gnl|CDD|226776 COG4326, Spo0M, Sporulation control protein [General function
prediction only].
Length = 270
Score = 30.6 bits (69), Expect = 1.0
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 229 EELEEAAAKNPDQFKLWYTVDRPEDGWK 256
+ELE +PD +LW+ VDR G
Sbjct: 206 DELEIVFYLDPDALELWFEVDRRARGAS 233
>gnl|CDD|197543 smart00148, PLCXc, Phospholipase C, catalytic domain (part); domain
X. Phosphoinositide-specific phospholipases C. These
enzymes contain 2 regions (X and Y) which together form
a TIM barrel-like structure containing the active site
residues. Phospholipase C enzymes (PI-PLC) act as signal
transducers that generate two second messengers,
inositol-1,4,5-trisphosphate and diacylglycerol. The
bacterial enzyme appears to be a homologue of the
mammalian PLCs.
Length = 143
Score = 29.6 bits (67), Expect = 1.2
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 8/66 (12%)
Query: 265 EMIAEHLFPPSPDNLVLMCGPPRKTVKNNLKPEDKKEMKTLFSE-FNKMKIHEGPPPMIN 323
E I + F SP ++L +++N+ P+ + +M +F E F M +
Sbjct: 74 EAIKDFAFVTSPYPVIL-------SLENHCSPDQQAKMAQMFKEIFGDMLYTPPLTSSLE 126
Query: 324 FACKPN 329
P
Sbjct: 127 VLPSPE 132
>gnl|CDD|235747 PRK06222, PRK06222, ferredoxin-NADP(+) reductase subunit alpha;
Reviewed.
Length = 281
Score = 29.8 bits (68), Expect = 2.1
Identities = 34/166 (20%), Positives = 65/166 (39%), Gaps = 54/166 (32%)
Query: 133 GKMSQFLENMKVGEPI-NVSGPRGRLAYLGNGEFHIRAVSKKDPPTNL-KVTQLSMIAGG 190
GK ++ L +K G+ I +V GP LG P+ + K + + GG
Sbjct: 67 GKSTRKLAELKEGDSILDVVGP------LGK-------------PSEIEKFGTVVCVGGG 107
Query: 191 TGITPMLQLVR-------HITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFK 243
GI P+ + + + ++I A +++ ++L +E++ + +
Sbjct: 108 VGIAPVYPIAKALKEAGNKVI---------TIIGA-RNKDLLILEDEMKAVSD------E 151
Query: 244 LWYTVDRPEDGWKYSTGFVSA---EMIAEHLFPPSPDNLVLMCGPP 286
L+ T D DG GFV+ E++ + V+ GP
Sbjct: 152 LYVTTD---DGSYGRKGFVTDVLKELLESGKKV----DRVVAIGPV 190
>gnl|CDD|182844 PRK10926, PRK10926, ferredoxin-NADP reductase; Provisional.
Length = 248
Score = 29.7 bits (67), Expect = 2.2
Identities = 34/114 (29%), Positives = 47/114 (41%), Gaps = 25/114 (21%)
Query: 84 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMK 143
GQ L I+ E V RAY+ V + ++ DL + Y V P+ GK+S L +K
Sbjct: 34 GQFTKLGLEIDGERVQRAYSYVNAPDNP---DL--EFYLVTV----PE-GKLSPRLAALK 83
Query: 144 VGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPML 197
G+ + V G F + V P L M+A GT I P L
Sbjct: 84 PGDEVQVVSE-------AAGFFVLDEV----PDCE----TLWMLATGTAIGPYL 122
>gnl|CDD|118103 pfam09567, RE_MamI, MamI restriction endonuclease. This family
includes the MamI (recognises and cleaves GATNN^NNATC)
restriction endonuclease.
Length = 350
Score = 29.4 bits (65), Expect = 3.1
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 131 DGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEF 165
D G ++QFL ++ +GEP G RG+ L +F
Sbjct: 42 DMGYIAQFLASIVLGEPGGRQGARGKDLVLPGDDF 76
>gnl|CDD|216206 pfam00939, Na_sulph_symp, Sodium:sulfate symporter transmembrane
region. There are also some members in this family that
do not match the Prosite motif, and belong to the
subfamily SODIT1.
Length = 471
Score = 29.2 bits (66), Expect = 3.9
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 5 ILVGVGLIVVVGFIISAIQESKSKKKDKASRSSKKELKTLVDPDVKVPLKLKEKI 59
I GV L+++V ++ + + K +A R +K ELK + P+ +EK
Sbjct: 222 IPPGVILLLLVPLLLYKLYPPEIKSSPEAKRWAKTELKEM------GPMTFREKA 270
>gnl|CDD|132268 TIGR03224, benzo_boxA, benzoyl-CoA oxygenase/reductase, BoxA
protein. Members of this protein family are BoxA, the A
component of the BoxAB benzoyl-CoA oxygenase/reductase.
This oxygen-requiring enzyme acts in an aerobic pathway
of benzoate catabolism via coenzyme A ligation. BoxA is
a homodimeric iron-sulphur-flavoprotein and acts as an
NADPH-dependent reductase for BoxB [Energy metabolism,
Other].
Length = 411
Score = 29.1 bits (65), Expect = 3.9
Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 109 EHHGYMDLVVKVYFKNV---HPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEF 165
E GY +L + V K V H G S +L ++K G+ + V GP G + N
Sbjct: 210 ERPGYNNLALTV--KRVTTDHQGNAVRGVASNYLCDLKKGDKVQVIGPFGSTFLMPN--- 264
Query: 166 HIRAVSKKDPPTNLKVTQLSMIAGGTGITPM 196
H + + MI GTG PM
Sbjct: 265 HPES-------------SIMMICTGTGSAPM 282
>gnl|CDD|99801 cd06204, CYPOR, NADPH cytochrome p450 reductase (CYPOR) serves as
an electron donor in several oxygenase systems and is a
component of nitric oxide synthases and methionine
synthase reductases. CYPOR transfers two electrons from
NADPH to the heme of cytochrome p450 via FAD and FMN.
Ferredoxin-NADP+ (oxido)reductase is an FAD-containing
enzyme that catalyzes the reversible electron transfer
between NADP(H) and electron carrier proteins such as
ferredoxin and flavodoxin. Isoforms of these
flavoproteins (i.e. having a non-covalently bound FAD as
a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 416
Score = 28.8 bits (65), Expect = 4.1
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 176 PTNLKVTQLSMIAGGTGITPM---LQLVRHITKDPTDNTKMSLIFANQ-SEKDILLREEL 231
PT T + MI GTG+ P +Q + + L F + ++D + ++EL
Sbjct: 261 PTKPS-TPVIMIGPGTGVAPFRGFIQERAALKESGKKVGPTLLFFGCRHPDEDFIYKDEL 319
Query: 232 EEAAAKNPDQFKL 244
EE A +L
Sbjct: 320 EEYAKLG-GLLEL 331
>gnl|CDD|216195 pfam00923, Transaldolase, Transaldolase.
Length = 244
Score = 28.7 bits (65), Expect = 4.2
Identities = 17/82 (20%), Positives = 26/82 (31%), Gaps = 18/82 (21%)
Query: 199 LVRHITKDPTDNTKMSLIFANQSEKDILLREELEEAAAKNPDQFKLWYTVDRPEDGWKYS 258
+ +T +P+ IF E L E + E D + + + + K
Sbjct: 19 PIDGVTTNPS-------IFLKAIEYSALYDEAIAEIKEIGGDDEEAYEELRPGYEILKGI 71
Query: 259 TGFVSAE-----------MIAE 269
G VS E IAE
Sbjct: 72 DGRVSLEVDPRLADDTEGTIAE 93
>gnl|CDD|237585 PRK14015, pepN, aminopeptidase N; Provisional.
Length = 875
Score = 28.9 bits (66), Expect = 4.7
Identities = 6/17 (35%), Positives = 13/17 (76%)
Query: 231 LEEAAAKNPDQFKLWYT 247
+E+A+ ++ QF+ WY+
Sbjct: 430 MEDASGRDLSQFRRWYS 446
>gnl|CDD|184438 PRK13985, ureB, urease subunit beta; Provisional.
Length = 568
Score = 28.7 bits (64), Expect = 5.6
Identities = 16/53 (30%), Positives = 22/53 (41%)
Query: 140 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 192
N+ VG G + G + HI +S + PT +MI GGTG
Sbjct: 109 NNLSVGPATEALAGEGLIVTAGGIDTHIHFISPQQIPTAFASGVTTMIGGGTG 161
>gnl|CDD|99799 cd06202, Nitric_oxide_synthase, The ferredoxin-reductase (FNR) like
C-terminal domain of the nitric oxide synthase (NOS)
fuses with a heme-containing N-terminal oxidase domain.
The reductase portion is similar in structure to NADPH
dependent cytochrome-450 reductase (CYPOR), having an
inserted connecting sub-domain within the FAD binding
portion of FNR. NOS differs from CYPOR in a requirement
for the cofactor tetrahydrobiopterin and unlike most
CYPOR is dimeric. Nitric oxide synthase produces nitric
oxide in the conversion of L-arginine to L-citruline.
NOS has been implicated in a variety of processes
including cytotoxicity, anti-inflamation,
neurotransmission, and vascular smooth muscle
relaxation.
Length = 406
Score = 28.5 bits (64), Expect = 5.6
Identities = 23/70 (32%), Positives = 30/70 (42%), Gaps = 10/70 (14%)
Query: 186 MIAGGTGITPM------LQLVRHITKDPTDN-TKMSLIFA-NQSEKDILLREELEEAAAK 237
M+ GTGI P Q +++DP M+L F S D + +EE EE AK
Sbjct: 251 MVGPGTGIAPFRSFWQQRQYDLRMSEDPGKKFGDMTLFFGCRNSTIDDIYKEETEE--AK 308
Query: 238 NPDQFKLWYT 247
N YT
Sbjct: 309 NKGVLTEVYT 318
>gnl|CDD|153122 cd02431, Ferritin_CCC1_C, CCC1-related domain of ferritin.
Ferritin_CCC1_like_C: The proteins of this family
contain two domains. This is the C-terminal domain that
is closely related to the CCC1, a vacuole transmembrane
protein functioning as an iron and manganese
transporter. The N-terminal domain is similar to
ferritin-like diiron-carboxylate proteins, which are
involved in a variety of iron ion related functions,
such as iron storage and regulation, mono-oxygenation,
and reactive radical production. This family may be
unique to certain bacteria and archaea. .
Length = 149
Score = 27.3 bits (61), Expect = 6.9
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 4 SILVGVGLIVVVGFIISAIQESKSKKK 30
S+ + V I++ F IS +KK
Sbjct: 101 SVTLAVLAILIFNFYISVASGISFRKK 127
>gnl|CDD|224040 COG1115, AlsT, Na+/alanine symporter [Amino acid transport and
metabolism].
Length = 452
Score = 28.3 bits (64), Expect = 7.1
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 1 SVPSILVGVGLIVVVGFII 19
+P ++ G+ L ++V +I
Sbjct: 180 GIPPLVTGIVLALLVALVI 198
>gnl|CDD|130908 TIGR01849, PHB_depoly_PhaZ, polyhydroxyalkanoate depolymerase,
intracellular. This model represents an intracellular
depolymerase for polyhydroxyalkanoate (PHA), a carbon
and energy storing polyester that accumulates in
granules in many bacterial species when carbon sources
are abundant but other nutrients are limiting. This
family is named for PHAs generally, rather than
polyhydroxybutyrate (PHB) specificially as in Ralstonia
eutropha H16, to avoid overcalling chemical specificity
in other species. Note that this family lacks the
classic GXSXG lipase motif and instead shows weak
similarity to some [Fatty acid and phospholipid
metabolism, Degradation].
Length = 406
Score = 27.8 bits (62), Expect = 9.9
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 10/62 (16%)
Query: 263 SAEMIAEHLFPPSPDNLVLMCGP--PRK--TVKNNLKPEDKKEMKTLFSEFNKMKIHEGP 318
+ ++AE+ P P ++ LM GP R TV N L E F I P
Sbjct: 185 AVALMAENEPPAQPRSMTLMGGPIDARASPTVVNELAREKP------IEWFQHNVIMRVP 238
Query: 319 PP 320
P
Sbjct: 239 FP 240
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 0.135 0.396
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,760,204
Number of extensions: 1711317
Number of successful extensions: 2062
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1941
Number of HSP's successfully gapped: 93
Length of query: 343
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 245
Effective length of database: 6,590,910
Effective search space: 1614772950
Effective search space used: 1614772950
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: 59 (26.5 bits)