RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780363|ref|YP_003064776.1| ferredoxin-NADP+ reductase
protein [Candidatus Liberibacter asiaticus str. psy62]
(264 letters)
>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 = 275 bits (707), Expect = 6e-75
Identities = 103/250 (41%), Positives = 149/250 (59%), Gaps = 15/250 (6%)
Query: 17 VISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVN-GRRISRAYSMASPCWDDKLEFF 75
V+ + +TD LF F +TR FRF++G+F LGL + G+ + RAYS+AS +++ LEF+
Sbjct: 2 VLKRRDWTDDLFSFRVTRDIPFRFQAGQFTKLGLPNDDGKLVRRAYSIASAPYEENLEFY 61
Query: 76 SIKVEQGPLTTHLQNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIR 135
I V GPLT L ++PGDTI + KK TG L LD + PG RL+L +TGTGIAPF+S++R
Sbjct: 62 IILVPDGPLTPRLFKLKPGDTIYVGKKPTGFLTLDEVPPGKRLWLLATGTGIAPFLSMLR 121
Query: 136 DPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEI--LKDLIGQKLKFYRTVTQEDY 193
D +E+FD++++ R EL Y QDEI L K ++ V++E
Sbjct: 122 DLEIWERFDKIVLVHGVRYAEELAY---------QDEIEALAKQYNGKFRYVPIVSREKE 172
Query: 194 --LYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKKFREGSNS 251
GRI + I SGE + L PL+P+T +M+CG+P MI D ++LL K F +
Sbjct: 173 NGALTGRIPDLIESGELEEHAGL-PLDPETSHVMLCGNPQMIDDTQELLKEKGFSKNHRR 231
Query: 252 RPGTFVVERA 261
+PG VE+
Sbjct: 232 KPGNITVEKY 241
>gnl|CDD|31221 COG1018, Hmp, Flavodoxin reductases (ferredoxin-NADPH reductases)
family 1 [Energy production and conversion].
Length = 266
Score = 151 bits (382), Expect = 2e-37
Identities = 70/260 (26%), Positives = 115/260 (44%), Gaps = 17/260 (6%)
Query: 17 VISIKHYTDRLFRFCITRPKSFR--FRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEF 74
V S++ TD +F F + P R F G+++ +GL G + RAYS++S +D L
Sbjct: 10 VTSVEPETDDVFSFTLEPPDGLRLDFEPGQYITVGLPNGGEPLLRAYSLSSAPDEDSLYR 69
Query: 75 FSIKVE-QGPLTTHLQ-NIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVS 132
S+K E G + L +++ GDT+ + G VLD L P +L L + G GI PF+S
Sbjct: 70 ISVKREDGGGGSNWLHDHLKVGDTLEV-SAPAGDFVLDDL-PERKLLLLAGGIGITPFLS 127
Query: 133 VIRDPGTYEKFDEVIVTQTCRQVVELQYG--IDVMHEISQDEILKDLIGQ-KLKFYRTVT 189
++R +V++ R +L + +++ E+ +L + KL+ V+
Sbjct: 128 MLRTLLDRGP-ADVVLVHAARTPADLAFRDELELAAELPNALLLGLYTERGKLQGRIDVS 186
Query: 190 QEDYLY--KGRITNHILSGEFYRNMD--LSPLNPDTDRIMICGSPTMIVDMKDLLIAKKF 245
+ GR G F + + L L DR+ + G M+ D LL
Sbjct: 187 RLLSAAPDGGREVYLCGPGPFMQAVRLALEALGVPDDRVHLEGFGPMLKDTAALLPFTTL 246
Query: 246 -REGS--NSRPGTFVVERAF 262
R G PG ++E A
Sbjct: 247 ARSGKEVRVPPGQTLLEAAE 266
>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 = 92.9 bits (231), Expect = 9e-20
Identities = 55/237 (23%), Positives = 97/237 (40%), Gaps = 25/237 (10%)
Query: 18 ISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDK--LEFF 75
++ + TD + F + P F F+ G++V L L +GR + RAYS+AS D++ LE
Sbjct: 1 VATEDVTDDVRLFRLQLPNGFSFKPGQYVDLHLPGDGRGLRRAYSIASS-PDEEGELELT 59
Query: 76 SIKVEQGPLTTHLQNIQPGDTI-LLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVI 134
V GP + L +++PGD + + L L+ + L + G GI PF S++
Sbjct: 60 VKIVPGGPFSAWLHDLKPGDEVEVSGPGGDFFLPLE---ESGPVVLIAGGIGITPFRSML 116
Query: 135 RD-PGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLI--GQKLKFYRTVTQE 191
R + ++ R +L + DE L++L G + +++E
Sbjct: 117 RHLAADKPGGEITLLYG-ARTPADLLF---------LDE-LEELAKEGPNFRLVLALSRE 165
Query: 192 DYLYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKKFREG 248
G E + + ICG P M +++ L++ E
Sbjct: 166 SEAKLGPGGRIDREAEI----LALLPDDSGALVYICGPPAMAKAVREALVSLGVPEE 218
>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 = 4e-15
Identities = 51/231 (22%), Positives = 95/231 (41%), Gaps = 25/231 (10%)
Query: 17 VISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDD-KLEFF 75
V+S++ T + + + F +G++V + + R RAYS A+P +D ++EF
Sbjct: 1 VVSVERLTHDIAVVRLQLDQPLPFWAGQYVNVT-VPGRPRTWRAYSPANPPNEDGEIEFH 59
Query: 76 SIKVEQGPLTTHL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVI 134
V G ++ L ++ GD + L GT L L + + GTG+AP +++
Sbjct: 60 VRAVPGGRVSNALHDELKVGDRVRL-SGPYGTFYLRRDHDRPVLCI-AGGTGLAPLRAIV 117
Query: 135 RDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQED-- 192
D + V + R +L Y ++ + ++ L+ V+ E+
Sbjct: 118 EDALRRGEPRPVHLFFGARTERDL-YDLEGLLALAARH-------PWLRVVPVVSHEEGA 169
Query: 193 -YLYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIA 242
+G +T+ + G + I ICG P M+ D L+A
Sbjct: 170 WTGRRGLVTDVV--GRDG-------PDWADHDIYICGPPAMVDATVDALLA 211
>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 = 68.7 bits (169), Expect = 1e-12
Identities = 54/243 (22%), Positives = 96/243 (39%), Gaps = 44/243 (18%)
Query: 16 SVISIKHYTDRLFRFCITRPKS-FRFRSGEFVMLGLMVNGRRISRAYSMASPCWD-DKLE 73
S I H R+FRF + P G+ V L +G ++ R Y+ SP D +
Sbjct: 5 SKEDISH-DTRIFRFELPSPDQVLGLPVGQHVELKAPDDGEQVVRPYTPISPDDDKGYFD 63
Query: 74 FFSIKV-EQGPLTTHLQNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVS 132
IK+ G ++ +L +++PGDT+ + + G + + + GTGI P +
Sbjct: 64 LL-IKIYPGGKMSQYLHSLKPGDTVEI-RGPFGKFEYKPNGKVKHIGMIAGGTGITPMLQ 121
Query: 133 VIR----DPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLI-------GQK 181
+IR DP K + L Y + +D +L++ + +
Sbjct: 122 LIRAILKDPEDKTK-------------ISLLYA----NRTEEDILLREELDELAKKHPDR 164
Query: 182 LKFYRTVTQEDY---LYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMI-VDMK 237
K + +++ G IT ++ L P + +++CG P MI +K
Sbjct: 165 FKVHYVLSRPPEGWKGGVGFITKEMIK------EHLPPPPSEDTLVLVCGPPPMIEGAVK 218
Query: 238 DLL 240
LL
Sbjct: 219 GLL 221
>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 = 66.8 bits (164), Expect = 5e-12
Identities = 55/232 (23%), Positives = 97/232 (41%), Gaps = 40/232 (17%)
Query: 28 FRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMAS-PCWDDKLEFFSIK-VEQGPLT 85
FRF F ++ G+F+ L L ++G + RAY+++S P D L ++K V G ++
Sbjct: 16 FRFAAPDGSLFAYKPGQFLTLELEIDGETVYRAYTLSSSPSRPDSLS-ITVKRVPGGLVS 74
Query: 86 THL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIR-----DPGT 139
L N++ GD + + G L P ++L L S G+GI P +S+ R P
Sbjct: 75 NWLHDNLKVGDELWASGPA-GEFTLID-HPADKLLLLSAGSGITPMMSMARWLLDTRPDA 132
Query: 140 YEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQ----KLKFYRTVTQEDYL- 194
+++ + R ++ I DE L++L + +L
Sbjct: 133 -----DIVFIHSARSPADI---------IFADE-LEELARRHPNFRLHLILEQPAPGAWG 177
Query: 195 -YKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKKF 245
Y+GR+ +L+ L P + + +CG + +K LL F
Sbjct: 178 GYRGRLNAELLA-------LLVPDLKERT-VFVCGPAGFMKAVKSLLAELGF 221
>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 = 64.5 bits (157), Expect = 3e-11
Identities = 51/221 (23%), Positives = 87/221 (39%), Gaps = 20/221 (9%)
Query: 26 RLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFFSIKVEQGPLT 85
F + P + FR G+ V L L +G + R YS+ S D++ +V G ++
Sbjct: 14 VTIVFAVPGPLQYGFRPGQHVTLKLDFDGEELRRCYSLCSSPAPDEISITVKRVPGGRVS 73
Query: 86 THL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEKFD 144
+L ++IQPG T+ + G V PG R L + G+GI P +++IR
Sbjct: 74 NYLREHIQPGMTVEV-MGPQGHFVYQPQPPG-RYLLVAAGSGITPLMAMIRATLQTAPES 131
Query: 145 EVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQED---YLYKGRITN 201
+ + + R ++ + + E++ Q+L+ T+E L GRI
Sbjct: 132 DFTLIHSARTPADMIFA-QELRELADKP-------QRLRLLCIFTRETLDSDLLHGRIDG 183
Query: 202 HILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIA 242
G L ICG M+ ++ L
Sbjct: 184 EQSLGAALIPDRL------EREAFICGPAGMMDAVETALKE 218
>gnl|CDD|30889 COG0543, UbiB, 2-polyprenylphenol hydroxylase and related
flavodoxin oxidoreductases [Coenzyme metabolism / Energy
production and conversion].
Length = 252
Score = 62.0 bits (150), Expect = 2e-10
Identities = 52/249 (20%), Positives = 97/249 (38%), Gaps = 28/249 (11%)
Query: 17 VISIKHYTDRLFRFCIT-RPKSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFF 75
V+ + + F + + F+ G+FVML + RR YS+AS D
Sbjct: 12 VVEKEEISPDTFLLRLRLPFVALTFKPGQFVMLRVPGGVRR---PYSLASAPDDKGELEL 68
Query: 76 SIKV-EQGPLTTHLQNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVI 134
I+V E G +T ++ ++ GD I + + G L I G + L + GTGIAP ++
Sbjct: 69 HIRVYEVGKVTKYIFGLKEGDKIRV-RGPLGNGFLREKI-GKPVLLIAGGTGIAPLYAIA 126
Query: 135 RDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQEDYL 194
++ ++V + R +L +D + E++ + + +
Sbjct: 127 KELKEKGDANKVTLLYGARTAKDL-LLLDELEELA-----------EKEVHPVTDDGWKG 174
Query: 195 YKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKKFREGSNSRPG 254
KG +T +L L+ + D + ICG P M+ +++ L ++
Sbjct: 175 RKGFVTTDVLKEL---------LDLEVDDVYICGPPAMVKAVREKLKEYGVPISASLVSI 225
Query: 255 TFVVERAFS 263
V
Sbjct: 226 MCRVSVDGG 234
>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 = 61.6 bits (150), Expect = 2e-10
Identities = 49/205 (23%), Positives = 85/205 (41%), Gaps = 23/205 (11%)
Query: 33 TRPKSFRFRSGEFVMLGLMVNGRRISRAYSMAS-PCWDDKLEFFSIKVEQGPLTTHLQN- 90
+ F G+FV + + G R+YS+A+ P WD +LEF + G +T+L+
Sbjct: 28 GAGIAAEFVPGQFV--EIEIPGTDTRRSYSLANTPNWDGRLEFLIRLLPGGAFSTYLETR 85
Query: 91 IQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEKFDEVIVTQ 150
+ G + L + G L R + + GTG+AP +S++R + + Q
Sbjct: 86 AKVGQRLNL-RGPLGAFGLRENGLRPR-WFVAGGTGLAPLLSMLRRMAEWGE------PQ 137
Query: 151 TCRQVVELQYGIDVMHEISQDEILKDLIGQ--KLKFYRTVTQEDYLYKGRITNHILSGEF 208
R L +G++ E+ + LK L L V + ++G +
Sbjct: 138 EAR----LFFGVNTEAELFYLDELKRLADSLPNLTVRICVWRPGGEWEGYRGTVV--DAL 191
Query: 209 YRNMDLSPLNPDTDRIMICGSPTMI 233
++ S PD I +CG P M+
Sbjct: 192 REDLASSDAKPD---IYLCGPPGMV 213
>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 = 61.5 bits (150), Expect = 2e-10
Identities = 57/203 (28%), Positives = 95/203 (46%), Gaps = 33/203 (16%)
Query: 38 FRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFFSIKVEQGPLTTHLQN-IQPGDT 96
F G++V L V G +R+YS +S D +LEF + G ++++L++ QPGD
Sbjct: 29 LAFLPGQYV--NLQVPGTDETRSYSFSSAPGDPRLEFLIRLLPGGAMSSYLRDRAQPGDR 86
Query: 97 ILLHKKSTGTLVLDALIPGNRLYLF-STGTGIAPFVSVIRDPGTYEKFDEVIVTQTCRQV 155
+ L TG L L R L + GTG+APF+S++ +V+
Sbjct: 87 LTL----TGPLGSFYLREVKRPLLMLAGGTGLAPFLSML----------DVLAEDGSAHP 132
Query: 156 VELQYGIDVMHEISQDEILKDLIGQKLKF-YRTVTQED---YLYKGRITNHILSGEFYRN 211
V L YG+ ++ + + L+ L + F +RTV + + KG +T+H
Sbjct: 133 VHLVYGVTRDADLVELDRLEALAERLPGFSFRTVVADPDSWHPRKGYVTDH--------- 183
Query: 212 MDLSPLN-PDTDRIMICGSPTMI 233
++ LN D D + +CG P M+
Sbjct: 184 LEAEDLNDGDVD-VYLCGPPPMV 205
>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 = 61.0 bits (149), Expect = 3e-10
Identities = 50/219 (22%), Positives = 93/219 (42%), Gaps = 30/219 (13%)
Query: 38 FRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFFSIK-VEQGPLTTHL-QNIQPGD 95
FR+R G+F+ L + ++G + R+YS+ S DD+L ++K V G + ++ GD
Sbjct: 31 FRYRPGQFLTLRVPIDGEEVRRSYSICSSPGDDELR-ITVKRVPGGRFSNWANDELKAGD 89
Query: 96 TILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEKFDEVIVTQTCRQV 155
T+ + G L L LF+ G+GI P +S+++ + + +V
Sbjct: 90 TLEVM-PPAGRFTLPPLPGARHYVLFAAGSGITPVLSILKT---------ALAREPASRV 139
Query: 156 VELQYG----IDVM--HEISQDEILKDLIGQKLKFYRTVTQEDY---LYKGRITNHILSG 206
L YG V+ E++ LK +L +++E L +GR+ L+
Sbjct: 140 T-LVYGNRTEASVIFREELAD---LKARYPDRLTVIHVLSREQGDPDLLRGRLDAAKLNA 195
Query: 207 EFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKKF 245
+D + D +CG M+ ++ L+
Sbjct: 196 LLKNLLDA----TEFDEAFLCGPEPMMDAVEAALLELGV 230
>gnl|CDD|35754 KOG0534, KOG0534, KOG0534, NADH-cytochrome b-5 reductase [Coenzyme
transport and metabolism, Energy production and
conversion].
Length = 286
Score = 60.3 bits (146), Expect = 5e-10
Identities = 50/227 (22%), Positives = 89/227 (39%), Gaps = 34/227 (14%)
Query: 19 SIKHYTDRLFRFCITRPKS-FRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEF--- 74
+ H T LFRF + G+ V+L + G+ + R Y+ P D +
Sbjct: 61 ELSHDT-SLFRFVLPSADHVLGLPIGQHVVLKAPIGGKLVVRPYT---PVSLDDDKGYFD 116
Query: 75 FSIKV-EQGPLTTHLQNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSV 133
+KV +G ++ HL +++ GDT+ + G D L + + GTGI P + +
Sbjct: 117 LVVKVYPKGKMSQHLDSLKIGDTVEF-RGPIGEFKYDPQ-KAKHLGMIAGGTGITPMLQL 174
Query: 134 IR----DPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVT 189
IR DP K + +T ++ ++ S+ ++ K + V
Sbjct: 175 IRAILKDPEDTTKISLLYANKTED---DILLREELEELASKYP-------ERFKVWYVVD 224
Query: 190 QEDYLY---KGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMI 233
Q ++ G IT ++ + L ++ICG P MI
Sbjct: 225 QPPEIWDGSVGFITKDLIKEHLPPPKEGETL------VLICGPPPMI 265
>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 = 59.5 bits (145), Expect = 8e-10
Identities = 53/219 (24%), Positives = 90/219 (41%), Gaps = 32/219 (14%)
Query: 20 IKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMAS-PCWDDKLEFFSIK 78
IK +T R + F F+ G+FVML L G S++S P LE +
Sbjct: 11 IKTFT---LRLEDDDEELFTFKPGQFVMLSLPGVGE---APISISSDPTRRGPLELTIRR 64
Query: 79 VEQGPLTTHLQNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPG 138
V G +T L ++PGDT+ L + G + G L L + G G+AP S+I
Sbjct: 65 V--GRVTEALHELKPGDTVGL-RGPFGNGFPVEEMKGKDLLLVAGGLGLAPLRSLINYIL 121
Query: 139 T-YEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQEDYLYK- 196
E + +V + R +L + ++E+ + ++ TV + + +
Sbjct: 122 DNREDYGKVTLLYGARTPEDLLF---------KEELKEWAKRSDVEVILTVDRAEEGWTG 172
Query: 197 --GRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMI 233
G +T+ + L+PD ++CG P M+
Sbjct: 173 NVGLVTDLL---------PELTLDPDNTVAIVCGPPIMM 202
>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 = 59.5 bits (145), Expect = 9e-10
Identities = 60/217 (27%), Positives = 93/217 (42%), Gaps = 35/217 (16%)
Query: 34 RP--KSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFFSI---KVEQGPLTTHL 88
RP R+G+ V LG+ ++G R R+YS++S + ++ G ++ L
Sbjct: 38 RPNRGWPGHRAGQHVRLGVEIDGVRHWRSYSLSSS-PTQEDGTITLTVKAQPDGLVSNWL 96
Query: 89 -QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEKFDEVI 147
++ PGD + L + G VL +P RL L + G+GI P +S++R T
Sbjct: 97 VNHLAPGDVVEL-SQPQGDFVLPDPLPP-RLLLIAAGSGITPVMSMLR---TLLA----- 146
Query: 148 VTQTCRQVVELQYGIDVMHEISQDEILKDLIGQ--KLKFYRTVTQEDYLYKGRITNHILS 205
VV L Y I DE L+ L Q L+ + T+E+ GR LS
Sbjct: 147 -RGPTADVVLLYYARTREDVIFADE-LRALAAQHPNLRLHLLYTREE--LDGR-----LS 197
Query: 206 GEFYRNMDLSPLNPD-TDR-IMICGSPTMIVDMKDLL 240
L + PD DR + CG P + ++LL
Sbjct: 198 AA-----HLDAVVPDLADRQVYACGPPGFLDAAEELL 229
>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 = 58.8 bits (143), Expect = 1e-09
Identities = 56/228 (24%), Positives = 98/228 (42%), Gaps = 33/228 (14%)
Query: 26 RLFRFCITRPKSFRFRSGEFVMLGL-MVNGRRISRAYSMAS-PCWDDKLEFFSIKVEQGP 83
+ FR + F +G+ V L L ++G R+YS+AS P ++E +V G
Sbjct: 17 KTFRLAVPDGVPPPFLAGQHVDLRLTAIDGYTAQRSYSIASSPTQRGRVELTVKRVPGGE 76
Query: 84 LTTHL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEK 142
++ +L ++ GD + + + GT + L G+ + L + G+GI P +S+IR
Sbjct: 77 VSPYLHDEVKVGDLLEV-RGPIGTFTWNPL-HGDPVVLLAGGSGIVPLMSMIRY------ 128
Query: 143 FDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQK--LKFYRTVTQE---DYL-YK 196
++ R + + DV I +DE L+ L + L +T+ D+L
Sbjct: 129 RRDLGWPVPFRLLYSARTAEDV---IFRDE-LEQLARRHPNLHVTEALTRAAPADWLGPA 184
Query: 197 GRITNHILSGEFYRNMDLSPLNPDTD--RIMICGSPTMIVDMKDLLIA 242
GRIT ++ L P R+ +CG P + LL+
Sbjct: 185 GRIT----------ADLIAELVPPLAGRRVYVCGPPAFVEAATRLLLE 222
>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 = 57.2 bits (139), Expect = 4e-09
Identities = 52/242 (21%), Positives = 99/242 (40%), Gaps = 37/242 (15%)
Query: 16 SVISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMAS-PCWDDKLEF 74
V SI+ D ++R + P F +G+++ L L+ +G + R +S+AS P D ++E
Sbjct: 2 KVESIEPLNDDVYRVRLKPPAPLDFLAGQYLDL-LLDDGDK--RPFSIASAPHEDGEIEL 58
Query: 75 FSIKVEQGPLTTH-LQNIQPGDTILL---HKKSTGTLVLDALIPGNRLYLFSTGTGIAPF 130
V G + + + ++ + + G L L L + GTG AP
Sbjct: 59 HIRAVPGGSFSDYVFEELKENGLVRIEGPL----GDFFLRED-SDRPLILIAGGTGFAPI 113
Query: 131 VSVIRDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRT--V 188
S++ + ++ + R + L +G ++ DE+L+ F +
Sbjct: 114 KSIL---------EHLLAQGSKRPIH-LYWGARTEEDLYLDELLEAWAEAHPNFTYVPVL 163
Query: 189 TQEDYLYKGRITNH---ILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKKF 245
++ + ++GR +L D L+ D D + CGSP M+ +D + K
Sbjct: 164 SEPEEGWQGRTGLVHEAVLE-------DFPDLS-DFD-VYACGSPEMVYAARDDFVEKGL 214
Query: 246 RE 247
E
Sbjct: 215 PE 216
>gnl|CDD|144531 pfam00970, FAD_binding_6, Oxidoreductase FAD-binding domain.
Length = 99
Score = 52.6 bits (127), Expect = 1e-07
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 7/86 (8%)
Query: 16 SVISIKHYTDRLFRFCITRPK-SFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEF 74
S+ H T R FRF + P G+ + L L ++G+ + RAYS AS D +
Sbjct: 6 EKESLSHDT-RRFRFALPSPDQVLGLPPGQHIFLRLPIDGKLVVRAYSPASS--PDDVGE 62
Query: 75 FSI---KVEQGPLTTHLQNIQPGDTI 97
+ G ++ +L +++ GDT+
Sbjct: 63 LELLVKVYPGGKMSQYLDSLKVGDTV 88
>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 = 51.1 bits (123), Expect = 3e-07
Identities = 60/240 (25%), Positives = 95/240 (39%), Gaps = 49/240 (20%)
Query: 16 SVISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNG-RRISRAYSMASPCWDDKLEF 74
+++SI+ T + R +P+ + F G+ + + G R R ++ S DD LEF
Sbjct: 4 TLLSIEPVTHDVKRLRFDKPEGYDFTPGQATEVAIDKPGWRDEKRPFTFTSLPEDDVLEF 63
Query: 75 FSIKV--EQGPLTTHLQNIQPGDTILLHK-------KSTGTLVLDALIPGNRLYLFSTGT 125
IK + +T L +QPGDT+L+ K G I G G
Sbjct: 64 -VIKSYPDHDGVTEQLGRLQPGDTLLIEDPWGAIEYKGPGVF-----IAG--------GA 109
Query: 126 GIAPFVSVIRDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFY 185
GI PF++++RD K + + + D++ + DE L+ ++G LKF
Sbjct: 110 GITPFIAILRDLAAKGKLE------GNTLIFANKTEKDIILK---DE-LEKMLG--LKFI 157
Query: 186 RTVTQEDY--LYKGRITNHILSGEFYRNMDLSPLNPDTDRIM-ICGSPTMIVDMKDLLIA 242
VT E GRI F L D ++ +CG P M + L
Sbjct: 158 NVVTDEKDPGYAHGRID-----KAF-----LKQHVTDFNQHFYVCGPPPMEEAINGALKE 207
>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 = 47.3 bits (113), Expect = 4e-06
Identities = 31/142 (21%), Positives = 60/142 (42%), Gaps = 26/142 (18%)
Query: 8 LPVNVYCESVISIKHYTD--RLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMAS 65
L V + +V+ I+ T + R + P+ F++G++V L G +RA+S+AS
Sbjct: 2 LNVKDFEGTVVEIEDLTPTIKGVRLKLDEPEEIEFQAGQYV--NLQAPGYEGTRAFSIAS 59
Query: 66 -PCWDDKLEFFSIKVEQGPLTTHL-QNIQPGDTILL---------HKKSTGTLVLDALIP 114
P ++E V G TT++ + ++ GD + + ++ A
Sbjct: 60 SPSDAGEIELHIRLVPGGIATTYVHKQLKEGDELEISGPYGDFFVRDSDQRPIIFIA--- 116
Query: 115 GNRLYLFSTGTGIAPFVSVIRD 136
G+G++ S+I D
Sbjct: 117 --------GGSGLSSPRSMILD 130
>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 = 46.8 bits (112), Expect = 6e-06
Identities = 48/224 (21%), Positives = 84/224 (37%), Gaps = 49/224 (21%)
Query: 40 FRSGEFVMLGLMV--NGRRISRAYSMASPCWDDKLEF-FSIK-VEQGPLTTHL-QNIQPG 94
F G+++ + + + G R R YS++ + + S+K G ++ +L N++ G
Sbjct: 37 FLPGQYLSVRVKLPGLGYRQIRQYSLSD--APNGDYYRISVKREPGGLVSNYLHDNVKVG 94
Query: 95 DTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEKFDEVIVTQTCRQ 154
D + + + G VLD L L S G GI P +S++ + R
Sbjct: 95 DVLEVSAPA-GDFVLDEASDRP-LVLISAGVGITPMLSMLE---------ALAAEGPGRP 143
Query: 155 VVELQYGIDVMH------EISQDEILKDLIGQ--KLK---FYRTVTQED----YLYKGRI 199
V +H + + L++L + LK FY D Y + GRI
Sbjct: 144 VT-------FIHAARNSAVHAFRDELEELAARLPNLKLHVFYSEPEAGDREEDYDHAGRI 196
Query: 200 TNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAK 243
+L L D D +CG + +++ L A
Sbjct: 197 DLALLRELL--------LPADAD-FYLCGPVPFMQAVREGLKAL 231
>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 = 46.6 bits (111), Expect = 7e-06
Identities = 31/99 (31%), Positives = 45/99 (45%), Gaps = 6/99 (6%)
Query: 39 RFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFFSIKVEQGPLTTHLQNIQPGDTIL 98
F +G+ +LG++ G + R YS+AS D LE K G + +L ++PGDTI
Sbjct: 83 SFEAGD--LLGILPPGSDVPRFYSLASSSSDGFLEICVRKHPGGLCSGYLHGLKPGDTIK 140
Query: 99 LHKKSTGTLVLDALIPGNR-LYLFSTGTGIAPFVSVIRD 136
+ + G + L GTGIAP IR
Sbjct: 141 AFIRPNPSFRPAK---GAAPVILIGAGTGIAPLAGFIRA 176
>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 = 45.7 bits (109), Expect = 1e-05
Identities = 32/116 (27%), Positives = 50/116 (43%), Gaps = 8/116 (6%)
Query: 24 TDRLFRFCITRPKSFRFRSGEFVMLGLM-VNGRRISRAYSMASPCWDDKLEFFSIK-VEQ 81
T + F F G++ +L L V G R AYSMA+ F IK
Sbjct: 8 THDVAEFRFALDGPADFLPGQYALLALPGVEGAR---AYSMANLANASGEWEFIIKRKPG 64
Query: 82 GPLTTHL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRD 136
G + L N++PGD + L G L + + + + G+G+AP +S++R
Sbjct: 65 GAASNALFDNLEPGDELELDG-PYGLAYLRPDEDRDIVCI-AGGSGLAPMLSILRG 118
>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 = 44.6 bits (106), Expect = 3e-05
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 6/113 (5%)
Query: 26 RLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMA-SPCWDDKLEFFSIKVEQGPL 84
R R + P+ +F +G++V + V G +R++SMA +P +LEF K G
Sbjct: 16 RRLRLRLEEPEPIKFFAGQYVDIT--VPGTEETRSFSMANTPADPGRLEFIIKKYPGGLF 73
Query: 85 TTHL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRD 136
++ L + GD + + GT L + L G+G+AP +S++RD
Sbjct: 74 SSFLDDGLAVGDPVTV-TGPYGTCTLRESRDR-PIVLIGGGSGMAPLLSLLRD 124
>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 = 44.2 bits (105), Expect = 3e-05
Identities = 31/126 (24%), Positives = 52/126 (41%), Gaps = 14/126 (11%)
Query: 17 VISIKHYTDRLFRFCITRPKSFRFRSGEFVML----GLMVNGRRISRAYSMAS-PCWDDK 71
V+S++ + + R + + + G++V L GL R+YS S P D++
Sbjct: 1 VVSLQRLSPDVLRVRLEPDRPLPYLPGQYVNLRRAGGLA-------RSYSPTSLPDGDNE 53
Query: 72 LEFFSIKVEQGPLTTHL-QNIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPF 130
LEF + G + L + +PG + L + G L L GTG+AP
Sbjct: 54 LEFHIRRKPNGAFSGWLGEEARPGHALRL-QGPFGQAFYRPEYGEGPLLLVGAGTGLAPL 112
Query: 131 VSVIRD 136
+ R
Sbjct: 113 WGIARA 118
>gnl|CDD|143941 pfam00175, NAD_binding_1, Oxidoreductase NAD-binding domain.
Xanthine dehydrogenases, that also bind FAD/NAD, have
essentially no similarity.
Length = 106
Score = 41.5 bits (98), Expect = 2e-04
Identities = 27/118 (22%), Positives = 49/118 (41%), Gaps = 21/118 (17%)
Query: 120 LFSTGTGIAPFVSVIRDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIG 179
+ + GTGIAP SV++ ++ + +V L YG ++ E L++L
Sbjct: 1 MIAGGTGIAPLYSVLK---------ALLEDEDGTEVY-LVYGNRTEDDLLLREELEELAK 50
Query: 180 Q--KLKFYRTVTQED--YLYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMI 233
+ LK +D Y KG +T+ +L + + + +CG P M+
Sbjct: 51 KYPNLKVVAVSRTDDGWYGRKGYVTDALLE-------EHLSEDLGDTDVYVCGPPPMM 101
>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 = 38.8 bits (91), Expect = 0.001
Identities = 43/219 (19%), Positives = 78/219 (35%), Gaps = 33/219 (15%)
Query: 17 VISIKHYTDRLFRFCITRPKSFR-FRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFF 75
++ + L I P + R FR G+FV L + S+A D +
Sbjct: 1 IVKKEQLEPNLVLLTIKAPLAARLFRPGQFVFLRNFESPGLERIPLSLAG--VDPEEGTI 58
Query: 76 SIKVE-QGPLTTHLQNIQPGDTILLHKKS-TGTLVLDALIPGNRLYLFSTGTGIAPFVSV 133
S+ VE +GP T + ++PG+ + + G G + L + G G+AP + +
Sbjct: 59 SLLVEIRGPKTKLIAELKPGEKLDVMGPLGNGFEGPK---KGGTVLLVAGGIGLAPLLPI 115
Query: 134 IRDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQEDY 193
+ ++V V ++ E + + + EI T
Sbjct: 116 AKK--LAANGNKVTVLAGAKKAKEE-FLDEYFELPADVEIW-------------TTD--- 156
Query: 194 LYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTM 232
G + + + + L D DRI++ GS M
Sbjct: 157 --DGELGLEGKVTDSDKPIPLE----DVDRIIVAGSDIM 189
>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 = 37.3 bits (87), Expect = 0.005
Identities = 24/89 (26%), Positives = 35/89 (39%), Gaps = 12/89 (13%)
Query: 55 RRISRAYSMASP--CWDDKLEF-FSI--KVEQGPLTTH------LQNIQPGDTILLHKKS 103
R R YS+AS KL F FS+ +G L T L G + + +S
Sbjct: 171 RLQPRPYSIASSPLEGPGKLRFIFSVVEFPAKG-LCTSWLESLCLSASSHGVKVPFYLRS 229
Query: 104 TGTLVLDALIPGNRLYLFSTGTGIAPFVS 132
+ L + + GTG+APF+
Sbjct: 230 SSRFRLPPDDLRRPIIMVGPGTGVAPFLG 258
>gnl|CDD|35262 KOG0039, KOG0039, KOG0039, Ferric reductase, NADH/NADPH oxidase and
related proteins [Inorganic ion transport and
metabolism, Secondary metabolites biosynthesis,
transport and catabolism].
Length = 646
Score = 36.9 bits (85), Expect = 0.006
Identities = 32/191 (16%), Positives = 64/191 (33%), Gaps = 18/191 (9%)
Query: 16 SVISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLEFF 75
+ + + +++P F+++ G+++ + + +++ S DD L
Sbjct: 358 KIAKVVLLPSDVLELIMSKPPGFKYKPGQYIFVNCPSLSKLEWHPFTITSAPEDDFLSVH 417
Query: 76 SIKVEQGPLTTHLQNI-------QPGDTILLHKKST-----GTLVLDALIPGNRLYLFST 123
IK G T L+N D K G D L L
Sbjct: 418 -IKA-LGDWTEKLRNAFSEVSQPPESDKSYPFPKILIDGPYGAPSQDVFKYEV-LVLVGG 474
Query: 124 GTGIAPFVSVIRD---PGTYEKFDEVIVTQTCRQVVELQYGIDVMHEISQDEILKDLIGQ 180
G G+ PF S+++D + + + ++ Y V E E K L+ +
Sbjct: 475 GIGVTPFASILKDLLNKISLGRTKAPTSDYSDSLKLKKVYFYWVTREQRSFEWFKGLLTE 534
Query: 181 KLKFYRTVTQE 191
++ + E
Sbjct: 535 VEEYDSSGVIE 545
>gnl|CDD|36374 KOG1159, KOG1159, KOG1159, NADP-dependent flavoprotein reductase
[Energy production and conversion].
Length = 574
Score = 35.3 bits (81), Expect = 0.016
Identities = 27/85 (31%), Positives = 40/85 (47%), Gaps = 11/85 (12%)
Query: 59 RAYSMASPCWDDKLEFFSIKVE---------QGPLTTHLQNIQPGDTILLHKKSTGTLVL 109
RA+S+AS LE VE +G + L +++PGD I + K GTL
Sbjct: 369 RAFSIASSPGAHHLELLVAIVEYKTILKEPRRGLCSNWLASLKPGDEIPI-KVRPGTLYF 427
Query: 110 DALIPGNRLYLFSTGTGIAPFVSVI 134
+ L + GTG+APF ++I
Sbjct: 428 PSD-LNKPLIMVGPGTGVAPFRALI 451
>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 = 35.0 bits (81), Expect = 0.021
Identities = 29/106 (27%), Positives = 48/106 (45%), Gaps = 31/106 (29%)
Query: 53 NGR-RISRAYSMASP-------------C------WDDKLEFFSIKVEQGPLTTHLQNIQ 92
NG+ R YS+AS C D + + + ++G + +L +++
Sbjct: 58 NGKPHKLRLYSIASSRYGDDGDGKTLSLCVKRLVYTDPETD----ETKKGVCSNYLCDLK 113
Query: 93 PGDTILLHKKSTGTLVLDALIP---GNRLYLFSTGTGIAPFVSVIR 135
PGD + + TG + L+P L + +TGTGIAPF S +R
Sbjct: 114 PGDDVQI----TGPVGKTMLLPEDPNATLIMIATGTGIAPFRSFLR 155
>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 = 34.5 bits (80), Expect = 0.028
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 24/104 (23%)
Query: 43 GEFV-MLGLMVNGRRISRAYSMAS-PCWDDK---LEF-------FSIKVE-QGPLTTHLQ 89
F+ ML M R R YS++S P D L S + +G +++L
Sbjct: 150 ATFLAMLPPM----RP-RQYSISSSPLVDPGHATLTVSVLDAPALSGQGRYRGVASSYLS 204
Query: 90 NIQPGDTILLH-KKSTGT--LVLDALIPGNRLYLFSTGTGIAPF 130
+++PGD+I + + S D P L + + GTG+APF
Sbjct: 205 SLRPGDSIHVSVRPSHSAFRPPSDPSTP---LIMIAAGTGLAPF 245
>gnl|CDD|33854 COG4097, COG4097, Predicted ferric reductase [Inorganic ion
transport and metabolism].
Length = 438
Score = 33.8 bits (77), Expect = 0.051
Identities = 25/125 (20%), Positives = 50/125 (40%), Gaps = 7/125 (5%)
Query: 13 YCESVISIKHYTDRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRI-SRAYSMASPCWDDK 71
Y V + + I + +++G+F L + + R+ +++A +
Sbjct: 216 YLGKVTAPQRGNVDTLEITIGLQGPWLYQAGQFAFLKIEIEEFRMRPHPFTIACSHEGSE 275
Query: 72 LEFFSIKVEQGPLTTHLQ-NIQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPF 130
L F SIK G T L+ N++ G + + G + + + G GI PF
Sbjct: 276 LRF-SIK-ALGDFTKTLKDNLKVGTKLEV-DGPYGKFDFERGLNTQ--VWIAGGIGITPF 330
Query: 131 VSVIR 135
+S++
Sbjct: 331 ISMLF 335
>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 = 32.7 bits (75), Expect = 0.096
Identities = 29/131 (22%), Positives = 51/131 (38%), Gaps = 32/131 (24%)
Query: 25 DRLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRA-----YSMAS--PCWDDKLEFFSI 77
+ R I +PK F+++ G+ V L N + +++AS D L I
Sbjct: 10 SDVIRLTIPKPKPFKWKPGQHVYL----NFPSLLSFWQSHPFTIASSPEDEQDTLSLI-I 64
Query: 78 KVEQGPLTTHLQNIQPGDTILLHKKSTGTLVLDALIPG------------NRLYLFSTGT 125
+ ++G TT L K G + L L+ G + + L + G+
Sbjct: 65 RAKKGF-TTRLLR-------KALKSPGGGVSLKVLVEGPYGSSSEDLLSYDNVLLVAGGS 116
Query: 126 GIAPFVSVIRD 136
GI + ++RD
Sbjct: 117 GITFVLPILRD 127
>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 = 32.2 bits (74), Expect = 0.15
Identities = 16/68 (23%), Positives = 31/68 (45%), Gaps = 6/68 (8%)
Query: 69 DDKLEFFSIKVEQGPLTTHLQNIQPGDTI-LLHKKSTGTLVLDALIPGNRLYLFSTGTGI 127
K + G +++L ++ G + + KKS+ L D P + + GTG+
Sbjct: 188 SWKTPSGRSR--YGLCSSYLAGLKVGQRVTVFIKKSSFKLPKDPKKP---IIMVGPGTGL 242
Query: 128 APFVSVIR 135
APF + ++
Sbjct: 243 APFRAFLQ 250
>gnl|CDD|147411 pfam05203, Hom_end_hint, Hom_end-associated Hint. Homing
endonucleases are encoded by mobile DNA elements that
are found inserted within host genes in all domains of
life. The crystal structure of the homing nuclease
PI-Sce revealed two domains: an endonucleolytic centre
resembling the C-terminal domain of Drosophila
melanogaster Hedgehog protein, and a a second domain
containing the protein-splicing active site. This Domain
corresponds to the latter protein-splicing domain.
Length = 438
Score = 30.2 bits (68), Expect = 0.63
Identities = 23/117 (19%), Positives = 38/117 (32%), Gaps = 12/117 (10%)
Query: 153 RQVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQEDYLY---KGRITNHILSGEFY 209
R+V+ L G D M+ I+Q + F + L R+ N + G
Sbjct: 35 RRVIGLPRGRDTMYRITQKTKHRVY--DLESFVCNANHKLVLRTPQNVRLENRTIRGNTV 92
Query: 210 RNMDLSPLNPDTDR-IMICGS-----PTMIVDMKDLLIAKKFREGSNSRPG-TFVVE 259
R +L R I I P + + AK+F + + +E
Sbjct: 93 RWRNLEETLTTDGRIIEIVKEHHKSFPHTEGEERAKEFAKEFASVIATGEYIEWEIE 149
>gnl|CDD|30718 COG0369, CysJ, Sulfite reductase, alpha subunit (flavoprotein)
[Inorganic ion transport and metabolism].
Length = 587
Score = 29.6 bits (66), Expect = 0.87
Identities = 47/209 (22%), Positives = 86/209 (41%), Gaps = 31/209 (14%)
Query: 59 RAYSMASPCWD--DKLEFFSIKVE--------QGPLTTHLQNIQP-GDTILLHKKSTGTL 107
R YS+AS D++ V G + +L ++ GDTI + +
Sbjct: 374 RLYSIASSPGVSPDEVHLTVGVVRYQAEGRERYGVCSGYLADLLEEGDTIPVFVQPNKNF 433
Query: 108 VL--DALIPGNRLYLFSTGTGIAPFVSVIRDPGTYEKFDEVIVTQTCRQVVELQYGIDVM 165
L D P + + GTGIAPF + +++ + + CR E D +
Sbjct: 434 RLPEDPETP---IIMIGPGTGIAPFRAFVQERAANGAEGKNWLFFGCRHFTE-----DFL 485
Query: 166 HEISQDEILKDLIGQKLKFYRTVTQEDYLY-KGRITNHILSGEFYRNMDLSPLNPDTDRI 224
++ +E LKD + +L + QE+ +Y + R+ + E + ++ + I
Sbjct: 486 YQEEWEEYLKDGVLTRLDLAFSRDQEEKIYVQDRLREQ--ADELWEWLE------EGAHI 537
Query: 225 MICGSPT-MIVDMKDLLIAKKFREGSNSR 252
+CG M D+++ L+ +EG SR
Sbjct: 538 YVCGDAKGMAKDVEEALLDILAKEGGLSR 566
>gnl|CDD|38588 KOG3378, KOG3378, KOG3378, Hemoglobin-like flavoprotein [Energy
production and conversion].
Length = 385
Score = 28.9 bits (64), Expect = 1.5
Identities = 15/81 (18%), Positives = 33/81 (40%), Gaps = 4/81 (4%)
Query: 59 RAYSMASPCWDDKLEFFSIKVEQGPLTTHL--QNIQPGDTILLHKKSTGTLVLDALIPGN 116
+ S ++ S++ G + ++ N++ GD + + + + + N
Sbjct: 204 YSLSNRVDTCRNQFRI-SVRRVAGGVVSNFVHDNLKVGDIVGVSPPAGNFVYKRSEENVN 262
Query: 117 R-LYLFSTGTGIAPFVSVIRD 136
R L F+ G GI P + +I
Sbjct: 263 RPLLCFAGGIGITPLIPIIET 283
>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 = 28.8 bits (65), Expect = 1.5
Identities = 23/106 (21%), Positives = 43/106 (40%), Gaps = 13/106 (12%)
Query: 36 KSFRFRSGEFVMLGLMVNGRRISRAYSMASPCWDDKLE-FFSIKVEQGPLTTHL-QNIQP 93
+ R+G+F L +G ++++S D F+IK G T L + ++P
Sbjct: 19 PALGHRAGQFAFLRFDASGWEEPHPFTISSA-PDPDGRLRFTIK-ALGDYTRRLAERLKP 76
Query: 94 GDTILL---HKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRD 136
G + + + G D R + G GI PF++++
Sbjct: 77 GTRVTVEGPY----GRFTFDD--RRARQIWIAGGIGITPFLALLEA 116
>gnl|CDD|33716 COG3934, COG3934, Endo-beta-mannanase [Carbohydrate transport and
metabolism].
Length = 587
Score = 28.8 bits (64), Expect = 1.7
Identities = 12/67 (17%), Positives = 22/67 (32%), Gaps = 1/67 (1%)
Query: 185 YRTVTQEDYLYKGRITNHILSGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLLIAKK 244
+ + ++ GR YR+ D + D +MI PT V L+
Sbjct: 359 PLFIRVFNLIFDGRQF-TPGQPTTYRDRDYKTMLDDAKLLMIPSGPTAGVTTWAWLLKGV 417
Query: 245 FREGSNS 251
+ +
Sbjct: 418 VNQVPDV 424
>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 = 28.5 bits (64), Expect = 2.1
Identities = 25/123 (20%), Positives = 47/123 (38%), Gaps = 18/123 (14%)
Query: 26 RLFRFCITRPKSFRFRSGEFVMLGLMVNGRRISRAYSMAS--PCWDDKLEFFSIKVE--- 80
R F ++ +++ G+ LG++ R YS+AS ++ V
Sbjct: 18 RHLEFDLSGNSVLKYQPGD--HLGVIPPNPLQPRYYSIASSPDVDPGEVHLCVRVVSYEA 75
Query: 81 ------QGPLTTHLQNIQPGDTILLHKKSTGTLVL--DALIPGNRLYLFSTGTGIAPFVS 132
+G + L +Q G + + + + L D P + + GTGIAPF
Sbjct: 76 PAGRIRKGVCSNFLAGLQLGAKVTVFIRPAPSFRLPKDPTTP---IIMVGPGTGIAPFRG 132
Query: 133 VIR 135
++
Sbjct: 133 FLQ 135
>gnl|CDD|36373 KOG1158, KOG1158, KOG1158, NADP/FAD dependent oxidoreductase
[Energy production and conversion].
Length = 645
Score = 28.4 bits (63), Expect = 2.1
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 6/58 (10%)
Query: 82 GPLTTHLQNIQPGD---TILLHKKSTGTLVLDALIPGNRLYLFSTGTGIAPFVSVIRD 136
G + L N++PG+ + KS L D P + + GTGIAPF +++
Sbjct: 458 GVCSNWLSNLKPGEKVPNPVPVGKSMFRLPSDPSTP---IIMIGPGTGIAPFRGFLQE 512
>gnl|CDD|31540 COG1349, GlpR, Transcriptional regulators of sugar metabolism
[Transcription / Carbohydrate transport and metabolism].
Length = 253
Score = 28.3 bits (63), Expect = 2.2
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 7/81 (8%)
Query: 91 IQPGDTILLHKKSTGTLVLDALIPGNRLYLFSTGTGIA------PFVSVIRDPGTYEKFD 144
I+ GDTI L +T + AL N L + + IA P + VI GT K
Sbjct: 89 IEDGDTIFLDAGTTTLALARALPDDNNLTVITNSLNIAAALLEKPNIEVILLGGTVRKKS 148
Query: 145 EVIVTQTCRQVVELQYGIDVM 165
V + + Q+ D
Sbjct: 149 GSFVGPLAEEFLR-QFNFDKA 168
>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 = 27.3 bits (61), Expect = 4.3
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 10/59 (16%)
Query: 81 QGPL-----TTHLQNIQPGDTILLHKKSTGTLVL--DALIPGNRLYLFSTGTGIAPFVS 132
QGP+ +T L + PGDT+ +S + L D +P + + GTGIAPF S
Sbjct: 208 QGPVHHGVCSTWLNGLTPGDTVPCFVRSAPSFHLPEDPSVP---VIMVGPGTGIAPFRS 263
>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 = 27.3 bits (61), Expect = 5.0
Identities = 11/51 (21%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 57 ISRAYSMASPCWDDKLEFFSIKVEQGPL----------TTHLQNIQPGDTI 97
+SRAYS+A+ ++ ++++ P ++++ N++PGD +
Sbjct: 85 VSRAYSLANYPAEEGELKLNVRIATPPPGNSDIPPGIGSSYIFNLKPGDKV 135
>gnl|CDD|99915 cd05532, POLBc_alpha, DNA polymerase type-B alpha subfamily
catalytic domain. Three DNA-dependent DNA polymerases
type B (alpha, delta, and epsilon) have been identified
as essential for nuclear DNA replication in eukaryotes.
DNA polymerase (Pol) alpha is almost exclusively
required for the initiation of DNA replication and the
priming of Okazaki fragments during elongation. In most
organisms no specific repair role, other than check
point control, has been assigned to this enzyme. Pol
alpha contains both polymerase and exonuclease domains,
but lacks exonuclease activity suggesting that the
exonuclease domain may be for structural purposes only..
Length = 400
Score = 27.2 bits (61), Expect = 5.4
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 9/61 (14%)
Query: 195 YKGRITNHIL--SGEFYRNMDLSPLNPDTDRIMICGSPTMIVDMKDLL-IAKKFREGSNS 251
KGR IL + + M+L + DTD IMI T D ++ + K ++ N
Sbjct: 139 SKGR---EILQKTKDLVEKMNLEVIYGDTDSIMIN---TGTTDYEEAKKLGNKIKKEVNK 192
Query: 252 R 252
Sbjct: 193 S 193
>gnl|CDD|132891 cd07051, BMC_like_1_repeat1, Bacterial Micro-Compartment (BMC)-like
domain 1 repeat 1. BMC-like domains exist in
cyanobacteria, proteobacteria, and actinobacteria and
are homologs of the carboxysome shell proteins. They
might be encoded from putative organelles involved in
unknown metabolic process. Although it has been
suggested that these carboxysome shell protein homologs
form hexamers and further assemble into the flat facets
of the polyhedral bacterial organelles shell at present
no experimental evidence exists to directly support this
view. Proteins in this CD contain two tandem BMC
domains. This CD includes repeat 1 (the first BMC domain
of BMC like 1 proteins).
Length = 111
Score = 26.9 bits (60), Expect = 5.7
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 154 QVVELQYGIDVMHEISQDEILKDLIGQKLKFYRTVTQEDYL 194
QVVE Q+G+ +H SQ E+L G + +T+ED L
Sbjct: 63 QVVERQFGLLELHSRSQSEVLA--AGDAVLDALGLTEEDRL 101
>gnl|CDD|176249 cd08289, MDR_yhfp_like, Yhfp putative quinone oxidoreductases.
yhfp putative quinone oxidoreductases (QOR). QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 326
Score = 26.5 bits (59), Expect = 8.2
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 13/60 (21%)
Query: 111 ALIPGNRL---YLFSTGTGIAPFVSVIRDPGTYEKFDEVIVTQTCRQVVELQYGIDVMHE 167
A IPG ++ Y F G +A V DP ++ DEVIVT Y + V H
Sbjct: 46 ASIPGGKIVKRYPFIPGIDLAGTVVESNDPR-FKPGDEVIVT---------SYDLGVSHH 95
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.324 0.141 0.421
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,272,276
Number of extensions: 173018
Number of successful extensions: 577
Number of sequences better than 10.0: 1
Number of HSP's gapped: 531
Number of HSP's successfully gapped: 55
Length of query: 264
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 172
Effective length of database: 4,275,709
Effective search space: 735421948
Effective search space used: 735421948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.6 bits)