RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5567
(314 letters)
>gnl|CDD|215141 PLN02252, PLN02252, nitrate reductase [NADPH].
Length = 888
Score = 216 bits (553), Expect = 4e-64
Identities = 91/227 (40%), Positives = 127/227 (55%), Gaps = 58/227 (25%)
Query: 87 LVDPDVKVPLKLKEKIEINHDTRCFRFELPSAEHVLGKQVIGFDARHRQKKKNPIANILT 146
++P K+P +L EKI ++HD R FRF LPS +HVLG
Sbjct: 628 ALNPREKIPCRLVEKISLSHDVRLFRFALPSEDHVLG----------------------- 664
Query: 147 PFQRVSFWCSRVVSAPESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHG 206
LP+G+H+ L ATIN + RAYTP +SD+ G
Sbjct: 665 ----------------------------LPVGKHVFLCATINGKLCMRAYTPTSSDDEVG 696
Query: 207 YMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSK 266
+ +LV+KVYFKNVHPKFP+GG MSQ+L+++ +G+ I+V GP G + Y G G F V+
Sbjct: 697 HFELVIKVYFKNVHPKFPNGGLMSQYLDSLPIGDTIDVKGPLGHIEYAGRGSF---LVNG 753
Query: 267 KDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFAN 313
K +L+M+AGGTGITPM Q+++ I +DP D T+MSL++AN
Sbjct: 754 KPKF----AKKLAMLAGGTGITPMYQVIQAILRDPEDKTEMSLVYAN 796
Score = 63.5 bits (155), Expect = 3e-11
Identities = 22/41 (53%), Positives = 31/41 (75%)
Query: 3 LGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVK 43
LGLP+G+H+ L ATIN + RAYTP +SD+ G+ +LV+K
Sbjct: 663 LGLPVGKHVFLCATINGKLCMRAYTPTSSDDEVGHFELVIK 703
>gnl|CDD|173521 PTZ00319, PTZ00319, NADH-cytochrome B5 reductase; Provisional.
Length = 300
Score = 179 bits (455), Expect = 2e-54
Identities = 83/231 (35%), Positives = 113/231 (48%), Gaps = 57/231 (24%)
Query: 88 VDPDVKVPLKLKEKIEINHDTRCFRFELPSAEHVLGKQVIGFDARHRQKKKNPIANILTP 147
+DPD+ KL +K E+ HDT FRF L S LG
Sbjct: 28 LDPDMFQHFKLIKKTEVTHDTFIFRFALHSPTQRLG------------------------ 63
Query: 148 FQRVSFWCSRVVSAPESEPPFHFAWLGLPIGQHLSLSATIND----EFVARAYTPVTSDE 203
LPIGQH+ E V +YTP++SD+
Sbjct: 64 ---------------------------LPIGQHIVFRCDCTTPGKPETVQHSYTPISSDD 96
Query: 204 HHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRA 263
GY+D ++KVYFK VHP FP+GG++SQ L +MK+G+ I + GP G+ YLGNG + +
Sbjct: 97 EKGYVDFLIKVYFKGVHPSFPNGGRLSQHLYHMKLGDKIEMRGPVGKFEYLGNGTYTVHK 156
Query: 264 VSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQ 314
+ V +MIAGGTGITPMLQ++ I K+ D TK+ L++ANQ
Sbjct: 157 GKGG--LKTMHVDAFAMIAGGTGITPMLQIIHAIKKNKEDRTKVFLVYANQ 205
Score = 49.8 bits (119), Expect = 6e-07
Identities = 19/45 (42%), Positives = 27/45 (60%), Gaps = 4/45 (8%)
Query: 3 LGLPIGQHLSLSATIND----EFVARAYTPVTSDEHHGYMDLVVK 43
LGLPIGQH+ E V +YTP++SD+ GY+D ++K
Sbjct: 62 LGLPIGQHIVFRCDCTTPGKPETVQHSYTPISSDDEKGYVDFLIK 106
>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 = 175 bits (447), Expect = 5e-54
Identities = 81/219 (36%), Positives = 106/219 (48%), Gaps = 76/219 (34%)
Query: 96 LKLKEKIEINHDTRCFRFELPSAEHVLGKQVIGFDARHRQKKKNPIANILTPFQRVSFWC 155
KL K +I+HDTR FRFELPS + VLG
Sbjct: 1 FKLVSKEDISHDTRIFRFELPSPDQVLG-------------------------------- 28
Query: 156 SRVVSAPESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVY 215
LP+GQH+ L A + E V R YTP++ D+ GY DL++K+Y
Sbjct: 29 -------------------LPVGQHVELKAPDDGEQVVRPYTPISPDDDKGYFDLLIKIY 69
Query: 216 FKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKV 275
GGKMSQ+L ++K G+ + + GP G+ Y NG KV
Sbjct: 70 P---------GGKMSQYLHSLKPGDTVEIRGPFGKFEYKPNG----------------KV 104
Query: 276 TQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQ 314
+ MIAGGTGITPMLQL+R I KDP D TK+SL++AN+
Sbjct: 105 KHIGMIAGGTGITPMLQLIRAILKDPEDKTKISLLYANR 143
Score = 64.5 bits (158), Expect = 3e-12
Identities = 22/44 (50%), Positives = 30/44 (68%)
Query: 3 LGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKSVP 46
LGLP+GQH+ L A + E V R YTP++ D+ GY DL++K P
Sbjct: 27 LGLPVGQHVELKAPDDGEQVVRPYTPISPDDDKGYFDLLIKIYP 70
>gnl|CDD|216220 pfam00970, FAD_binding_6, Oxidoreductase FAD-binding domain.
Length = 99
Score = 102 bits (257), Expect = 2e-27
Identities = 50/159 (31%), Positives = 69/159 (43%), Gaps = 60/159 (37%)
Query: 95 PLKLKEKIEINHDTRCFRFELPSAEHVLGKQVIGFDARHRQKKKNPIANILTPFQRVSFW 154
P KL EK ++HD R FRF LPS + VLG
Sbjct: 1 PAKLVEKESLSHDVRRFRFALPSPDQVLG------------------------------- 29
Query: 155 CSRVVSAPESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKV 214
LP GQH+ L I+ + V RAY+P +S + G ++L+VKV
Sbjct: 30 --------------------LPPGQHIFLRLPIDGKLVVRAYSPASSPDDVGELELLVKV 69
Query: 215 YFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAY 253
Y GGKMSQ+L+++K+G+ + V GP G Y
Sbjct: 70 Y---------PGGKMSQYLDSLKIGDTVEVKGPLGHFEY 99
Score = 59.5 bits (145), Expect = 2e-11
Identities = 20/45 (44%), Positives = 29/45 (64%)
Query: 2 WLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKSVP 46
LGLP GQH+ L I+ + V RAY+P +S + G ++L+VK P
Sbjct: 27 VLGLPPGQHIFLRLPIDGKLVVRAYSPASSPDDVGELELLVKVYP 71
>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 = 78.3 bits (193), Expect = 5e-17
Identities = 36/153 (23%), Positives = 64/153 (41%), Gaps = 32/153 (20%)
Query: 162 PESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHP 221
+ F F GQ++ L + + RAY+ +S + G ++L VK+
Sbjct: 15 LQLPNGFSF-----KPGQYVDLHLPGDGRGLRRAYSIASSPDEEGELELTVKIV------ 63
Query: 222 KFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMI 281
GG S +L ++K G+ + VSGP G + + +I
Sbjct: 64 ---PGGPFSAWLHDLKPGDEVEVSGPGGD------------FFLPLEESGPVV-----LI 103
Query: 282 AGGTGITPMLQLVRHITKDPTDNTKMSLIFANQ 314
AGG GITP ++RH+ D +++L++ +
Sbjct: 104 AGGIGITPFRSMLRHLAADK-PGGEITLLYGAR 135
Score = 34.0 bits (78), Expect = 0.072
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 8 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKSVPS 47
GQ++ L + + RAY+ +S + G ++L VK VP
Sbjct: 26 GQYVDLHLPGDGRGLRRAYSIASSPDEEGELELTVKIVPG 65
>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 = 68.0 bits (167), Expect = 3e-13
Identities = 35/141 (24%), Positives = 58/141 (41%), Gaps = 34/141 (24%)
Query: 178 GQHLSLSATINDEFVARAY---TPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL- 233
GQ L+L I+ E V R+Y + DE L + V K V GG+ S +
Sbjct: 36 GQFLTLRVPIDGEEVRRSYSICSSPGDDE------LRITV--KRV-----PGGRFSNWAN 82
Query: 234 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQL 293
+ +K G+ + V P GR F P + A G+GITP+L +
Sbjct: 83 DELKAGDTLEVMPPAGR--------FT--------LPPLPGARHYVLFAAGSGITPVLSI 126
Query: 294 VRHITKDPTDNTKMSLIFANQ 314
++ + ++L++ N+
Sbjct: 127 LKTALAREPASR-VTLVYGNR 146
Score = 34.1 bits (79), Expect = 0.061
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 8 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKSVP 46
GQ L+L I+ E V R+Y+ + S + + VK VP
Sbjct: 36 GQFLTLRVPIDGEEVRRSYS-ICSSPGDDELRITVKRVP 73
>gnl|CDD|140300 PTZ00274, PTZ00274, cytochrome b5 reductase; Provisional.
Length = 325
Score = 68.4 bits (167), Expect = 5e-13
Identities = 41/126 (32%), Positives = 57/126 (45%), Gaps = 31/126 (24%)
Query: 194 RAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAY 253
R YTPVT++ GY D++VK G M+ L M VG+ + ++ Y
Sbjct: 104 RFYTPVTANHTKGYFDIIVKR---------KKDGLMTNHLFGMHVGDKLLFRSVTFKIQY 154
Query: 254 LGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDP-----TDNTKMS 308
N H+ MIAGGTG TPMLQ++RH +P D TK+S
Sbjct: 155 RPNRWKHV-----------------GMIAGGTGFTPMLQIIRHSLTEPWDSGEVDRTKLS 197
Query: 309 LIFANQ 314
+F N+
Sbjct: 198 FLFCNR 203
Score = 30.7 bits (69), Expect = 0.86
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 24 RAYTPVTSDEHHGYMDLVVK 43
R YTPVT++ GY D++VK
Sbjct: 104 RFYTPVTANHTKGYFDIIVK 123
>gnl|CDD|223949 COG1018, Hmp, Flavodoxin reductases (ferredoxin-NADPH reductases)
family 1 [Energy production and conversion].
Length = 266
Score = 67.3 bits (165), Expect = 5e-13
Identities = 36/137 (26%), Positives = 55/137 (40%), Gaps = 34/137 (24%)
Query: 161 APESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTS-DEHHGYMDLVVKVYFKNV 219
P F GQ++++ E + RAY+ ++ DE Y + VK
Sbjct: 26 EPPDGLRLDFE-----PGQYITVGLPNGGEPLLRAYSLSSAPDEDSLYR-ISVKR----- 74
Query: 220 HPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQL 278
DGG S +L +++KVG+ + VS P G P L
Sbjct: 75 ----EDGGGGSNWLHDHLKVGDTLEVSAPAGDFVL------------DDLPERKL----- 113
Query: 279 SMIAGGTGITPMLQLVR 295
++AGG GITP L ++R
Sbjct: 114 LLLAGGIGITPFLSMLR 130
>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 = 63.8 bits (156), Expect = 7e-12
Identities = 48/178 (26%), Positives = 76/178 (42%), Gaps = 54/178 (30%)
Query: 151 VSFWCSRVVSAPESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYT----PVTSDEHHG 206
+F R + S + P GQ L+L I+ E V RAYT P D
Sbjct: 14 KTF---RFAAPDGSLFAY------KP-GQFLTLELEIDGETVYRAYTLSSSPSRPD---- 59
Query: 207 YMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVS 265
+ + VK GG +S +L +N+KVG+ + SGP G EF +
Sbjct: 60 SLSITVKRV---------PGGLVSNWLHDNLKVGDELWASGPAG--------EFTL---- 98
Query: 266 KKDPPTNLKVTQLSMIAGGTGITPMLQLVRHI--TKDPTD-------NTKMSLIFANQ 314
D P + +L +++ G+GITPM+ + R + T+ D + +IFA++
Sbjct: 99 -IDHPAD----KLLLLSAGSGITPMMSMARWLLDTRPDADIVFIHSARSPADIIFADE 151
Score = 30.6 bits (70), Expect = 0.85
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 8/43 (18%)
Query: 8 GQHLSLSATINDEFVARAYT----PVTSDEHHGYMDLVVKSVP 46
GQ L+L I+ E V RAYT P D + + VK VP
Sbjct: 31 GQFLTLELEIDGETVYRAYTLSSSPSRPD----SLSITVKRVP 69
>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 = 62.3 bits (152), Expect = 2e-11
Identities = 39/155 (25%), Positives = 67/155 (43%), Gaps = 35/155 (22%)
Query: 162 PESEPPFHFAWLGLPIGQHLSLSATINDEF-VARAYTPVTSDEHHGYMDLVVKVYFKNVH 220
P+ PP A GQH+ L T D + R+Y+ +S G ++L VK
Sbjct: 24 PDGVPPPFLA------GQHVDLRLTAIDGYTAQRSYSIASSPTQRGRVELTVKRV----- 72
Query: 221 PKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLS 279
GG++S +L + +KVG+ + V GP G F L +
Sbjct: 73 ----PGGEVSPYLHDEVKVGDLLEVRGP--------IGTFTWN---------PLHGDPVV 111
Query: 280 MIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQ 314
++AGG+GI P++ ++R+ D L+++ +
Sbjct: 112 LLAGGSGIVPLMSMIRYRR-DLGWPVPFRLLYSAR 145
Score = 31.5 bits (72), Expect = 0.38
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 8 GQHLSLSATINDEF-VARAYTPVTSDEHHGYMDLVVKSVP 46
GQH+ L T D + R+Y+ +S G ++L VK VP
Sbjct: 34 GQHVDLRLTAIDGYTAQRSYSIASSPTQRGRVELTVKRVP 73
>gnl|CDD|223617 COG0543, UbiB, 2-polyprenylphenol hydroxylase and related
flavodoxin oxidoreductases [Coenzyme metabolism / Energy
production and conversion].
Length = 252
Score = 60.5 bits (147), Expect = 1e-10
Identities = 36/145 (24%), Positives = 66/145 (45%), Gaps = 30/145 (20%)
Query: 170 FAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKM 229
F L GQ + L R Y+ ++ + G ++L ++VY + GK+
Sbjct: 31 FVALTFKPGQFVMLRVPGGVR---RPYSLASAPDDKGELELHIRVY---------EVGKV 78
Query: 230 SQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 289
++++ +K G+ I V GP LGNG F + K + +IAGGTGI P
Sbjct: 79 TKYIFGLKEGDKIRVRGP------LGNG-FLREKIGKP----------VLLIAGGTGIAP 121
Query: 290 MLQLVRHITKDPTDNTKMSLIFANQ 314
+ + + + + N K++L++ +
Sbjct: 122 LYAIAKELKEKGDAN-KVTLLYGAR 145
>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 = 55.7 bits (135), Expect = 5e-09
Identities = 34/126 (26%), Positives = 56/126 (44%), Gaps = 28/126 (22%)
Query: 172 WLGLPIGQHLSLSATINDEFVARAYTPVTSDEH-HGYMDLVVKVYFKNVHPKFPDGGKMS 230
W G GQH+ L I+ R+Y+ +S G + L VK P G +S
Sbjct: 43 WPGHRAGQHVRLGVEIDGVRHWRSYSLSSSPTQEDGTITLTVKA-----QP----DGLVS 93
Query: 231 QFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 289
+L ++ G+ + +S P+G +F + PP L +IA G+GITP
Sbjct: 94 NWLVNHLAPGDVVELSQPQG--------DFVLPDPL---PPRLL------LIAAGSGITP 136
Query: 290 MLQLVR 295
++ ++R
Sbjct: 137 VMSMLR 142
Score = 29.1 bits (66), Expect = 2.5
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 2 WLGLPIGQHLSLSATINDEFVARAYTPVTSDEH-HGYMDLVVKSVPSILV 50
W G GQH+ L I+ R+Y+ +S G + L VK+ P LV
Sbjct: 43 WPGHRAGQHVRLGVEIDGVRHWRSYSLSSSPTQEDGTITLTVKAQPDGLV 92
>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 = 53.7 bits (129), Expect = 2e-08
Identities = 32/125 (25%), Positives = 57/125 (45%), Gaps = 28/125 (22%)
Query: 172 WLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQ 231
G GQH++L + E + R Y+ + S + + VK + P GG++S
Sbjct: 25 QYGFRPGQHVTLKLDFDGEELRRCYS-LCSSPAPDEISITVK--------RVP-GGRVSN 74
Query: 232 FL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPM 290
+L E+++ G + V GP+G Y + P L ++A G+GITP+
Sbjct: 75 YLREHIQPGMTVEVMGPQGHFVY-----------QPQPPGRYL------LVAAGSGITPL 117
Query: 291 LQLVR 295
+ ++R
Sbjct: 118 MAMIR 122
Score = 35.2 bits (81), Expect = 0.025
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 2 WLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKSVPSILV 50
G GQH++L + E + R Y+ + S + + VK VP V
Sbjct: 25 QYGFRPGQHVTLKLDFDGEELRRCYS-LCSSPAPDEISITVKRVPGGRV 72
>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 = 48.4 bits (116), Expect = 2e-07
Identities = 14/35 (40%), Positives = 25/35 (71%), Gaps = 1/35 (2%)
Query: 280 MIAGGTGITPMLQLVRHITKDPTDNTKMSLIFANQ 314
MIAGGTGI P+ +++ + +D D T++ L++ N+
Sbjct: 1 MIAGGTGIAPLYSVLKALLED-EDGTEVYLVYGNR 34
>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 = 49.1 bits (118), Expect = 8e-07
Identities = 26/102 (25%), Positives = 42/102 (41%), Gaps = 28/102 (27%)
Query: 202 DEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHI 261
D G + L+ KV GK ++ L +K G+ ++V GP LGNG F +
Sbjct: 53 DPEEGTITLLYKVV-----------GKGTRLLSELKAGDELDVLGP------LGNG-FDL 94
Query: 262 RAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTD 303
K + ++ GG GI P+L L + + +
Sbjct: 95 PDDDGK----------VLLVGGGIGIAPLLFLAKQLAERGIK 126
>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 = 47.6 bits (114), Expect = 2e-06
Identities = 31/136 (22%), Positives = 55/136 (40%), Gaps = 33/136 (24%)
Query: 163 ESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPK 222
+ + P F GQ++++ RAY+P G ++ V+
Sbjct: 17 QLDQPLPF----WA-GQYVNV-TVPGRPRTWRAYSPANPPNEDGEIEFHVRAV------- 63
Query: 223 FPDGGKMSQFLEN-MKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMI 281
GG++S L + +KVG+ + +SGP G F++R + + I
Sbjct: 64 --PGGRVSNALHDELKVGDRVRLSGPYGT--------FYLRRDHDRP---------VLCI 104
Query: 282 AGGTGITPMLQLVRHI 297
AGGTG+ P+ +V
Sbjct: 105 AGGTGLAPLRAIVEDA 120
>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 = 47.2 bits (113), Expect = 3e-06
Identities = 25/88 (28%), Positives = 45/88 (51%), Gaps = 20/88 (22%)
Query: 225 DGGKMSQFLENM-KVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAG 283
GG MS +L + + G+ + ++GP G F++R V K P L M+AG
Sbjct: 69 PGGAMSSYLRDRAQPGDRLTLTGPLG--------SFYLREV--KRP--------LLMLAG 110
Query: 284 GTGITPMLQLVRHITKDPTDNTKMSLIF 311
GTG+ P L ++ + +D + + + L++
Sbjct: 111 GTGLAPFLSMLDVLAEDGSAH-PVHLVY 137
>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 = 46.1 bits (110), Expect = 6e-06
Identities = 29/141 (20%), Positives = 54/141 (38%), Gaps = 36/141 (25%)
Query: 157 RVVSAPESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYF 216
RV P+ P+ P GQ+++L +AR+Y+P + + ++ ++
Sbjct: 13 RVRLEPDRPLPYL------P-GQYVNL---RRAGGLARSYSPTSLPDGDNELEFHIRRK- 61
Query: 217 KNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKV 275
G S +L E + G + + GP G+ Y R + P
Sbjct: 62 --------PNGAFSGWLGEEARPGHALRLQGPFGQAFY--------RPEYGEGP------ 99
Query: 276 TQLSMIAGGTGITPMLQLVRH 296
L ++ GTG+ P+ + R
Sbjct: 100 --LLLVGAGTGLAPLWGIARA 118
>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 = 46.1 bits (110), Expect = 7e-06
Identities = 31/121 (25%), Positives = 51/121 (42%), Gaps = 27/121 (22%)
Query: 192 VARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENMKVGEPINVSGPRGR 250
ARAY+ G + ++K GG S L +N++ G+ + + GP G
Sbjct: 39 GARAYSMANLANASGEWEFIIKRK---------PGGAASNALFDNLEPGDELELDGPYGL 89
Query: 251 LAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLI 310
AYL R +D + IAGG+G+ PML ++R + P + + +
Sbjct: 90 -AYL-------RPDEDRD---------IVCIAGGSGLAPMLSILRGAARSPYLSDRPVDL 132
Query: 311 F 311
F
Sbjct: 133 F 133
>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 = 45.7 bits (109), Expect = 7e-06
Identities = 33/123 (26%), Positives = 51/123 (41%), Gaps = 35/123 (28%)
Query: 194 RAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAY 253
R +T TS ++ V+K Y PD +++ L ++ G+ + + P G + Y
Sbjct: 48 RPFTF-TSLPEDDVLEFVIKSY--------PDHDGVTEQLGRLQPGDTLLIEDPWGAIEY 98
Query: 254 LGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPT--DNTKMSLIF 311
G G F IAGG GITP + ++R + NT LIF
Sbjct: 99 KGPGVF---------------------IAGGAGITPFIAILRDLAAKGKLEGNT---LIF 134
Query: 312 ANQ 314
AN+
Sbjct: 135 ANK 137
>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 = 46.0 bits (110), Expect = 8e-06
Identities = 35/140 (25%), Positives = 61/140 (43%), Gaps = 31/140 (22%)
Query: 178 GQHLSLSATINDE--FVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-E 234
GQ+LS+ + R Y+ ++ + Y + VK + GG +S +L +
Sbjct: 40 GQYLSVRVKLPGLGYRQIRQYS-LSDAPNGDYYRISVK---RE------PGGLVSNYLHD 89
Query: 235 NMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLV 294
N+KVG+ + VS P G +F + S + P L I+ G GITPML ++
Sbjct: 90 NVKVGDVLEVSAPAG--------DFVLDEASDR--PLVL-------ISAGVGITPMLSML 132
Query: 295 RHITKDPTDNTKMSLIFANQ 314
+ + ++ I A +
Sbjct: 133 EALAAEGPG-RPVTFIHAAR 151
>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 = 45.6 bits (109), Expect = 9e-06
Identities = 35/158 (22%), Positives = 55/158 (34%), Gaps = 45/158 (28%)
Query: 152 SFWCSRVVSAPESEP--PFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMD 209
SF +R F LGLP + + V RAY+ S + ++
Sbjct: 14 SFRVTR----DIPFRFQAGQFTKLGLPND---------DGKLVRRAYSIA-SAPYEENLE 59
Query: 210 -LVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVS-GPRGRLAYLGNGEFHIRAVSKK 267
++ V G ++ L +K G+ I V P G L +
Sbjct: 60 FYIILV----------PDGPLTPRLFKLKPGDTIYVGKKPTGFL------------TLDE 97
Query: 268 DPPTNLKVTQLSMIAGGTGITPMLQLVR-HITKDPTDN 304
PP +L ++A GTGI P L ++R + D
Sbjct: 98 VPPGK----RLWLLATGTGIAPFLSMLRDLEIWERFDK 131
>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 = 45.8 bits (109), Expect = 1e-05
Identities = 32/135 (23%), Positives = 56/135 (41%), Gaps = 30/135 (22%)
Query: 178 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLEN-M 236
GQ + + I R+Y+ + G ++ ++++ P GG S +LE
Sbjct: 38 GQFVEIE--IPGTDTRRSYSLANTPNWDGRLEFLIRL-----LP----GGAFSTYLETRA 86
Query: 237 KVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRH 296
KVG+ +N+ GP G NG R +AGGTG+ P+L ++R
Sbjct: 87 KVGQRLNLRGPLGAFGLRENG-LRPRW----------------FVAGGTGLAPLLSMLRR 129
Query: 297 ITKDPTDNTKMSLIF 311
+ + + + L F
Sbjct: 130 M-AEWGEPQEARLFF 143
>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 = 45.8 bits (109), Expect = 1e-05
Identities = 32/126 (25%), Positives = 55/126 (43%), Gaps = 22/126 (17%)
Query: 187 INDEFVARAYTPVTSDEHHGYMDLVVKVYF-KNVHPKFPDGGKMSQFLENMKVGEPINVS 245
+DE V+RAY+ G + L V++ + P G S ++ N+K G+ + S
Sbjct: 80 KHDEPVSRAYSLANYPAEEGELKLNVRIATPPPGNSDIPPG-IGSSYIFNLKPGDKVTAS 138
Query: 246 GPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNT 305
GP + GEF I+ + ++ I GG G+ P+ + H+ K T +
Sbjct: 139 GP-----F---GEFFIKDTDR----------EMVFIGGGAGMAPLRSHIFHLLK--TLKS 178
Query: 306 KMSLIF 311
K + F
Sbjct: 179 KRKISF 184
>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 = 45.0 bits (107), Expect = 2e-05
Identities = 35/142 (24%), Positives = 63/142 (44%), Gaps = 34/142 (23%)
Query: 157 RVVSAPESEPPFHFAWLGLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYF 216
R+ E P F GQ++ + T+ R+++ + G ++ ++K Y
Sbjct: 17 RLRLRLEEPEPIKF----FA-GQYVDI--TVPGTEETRSFSMANTPADPGRLEFIIKKY- 68
Query: 217 KNVHPKFPDGGKMSQFLEN-MKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKV 275
GG S FL++ + VG+P+ V+GP Y G +R S+ P
Sbjct: 69 --------PGGLFSSFLDDGLAVGDPVTVTGP-----Y---GTCTLR-ESRDRP------ 105
Query: 276 TQLSMIAGGTGITPMLQLVRHI 297
+ +I GG+G+ P+L L+R +
Sbjct: 106 --IVLIGGGSGMAPLLSLLRDM 125
>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 = 45.6 bits (108), Expect = 2e-05
Identities = 29/138 (21%), Positives = 54/138 (39%), Gaps = 27/138 (19%)
Query: 178 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL-ENM 236
GQHL+L ++ E + R+Y+ + ++V K + GG S + + +
Sbjct: 36 GQHLTLRREVDGEELRRSYSICS-----APAPGEIRVAVKKI-----PGGLFSTWANDEI 85
Query: 237 KVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRH 296
+ G+ + V P+G F P +A G+GITPML +
Sbjct: 86 RPGDTLEVMAPQGL--------FT----PDLSTPHA---GHYVAVAAGSGITPMLSIAE- 129
Query: 297 ITKDPTDNTKMSLIFANQ 314
+ +L++ N+
Sbjct: 130 TVLAAEPRSTFTLVYGNR 147
>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 = 43.7 bits (104), Expect = 4e-05
Identities = 20/81 (24%), Positives = 32/81 (39%), Gaps = 18/81 (22%)
Query: 225 DGGKMSQ-FLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAG 283
GG S E +K + + GP G+F +R S + L +IAG
Sbjct: 64 PGGSFSDYVFEELKENGLVRIEGP--------LGDFFLREDSDR---------PLILIAG 106
Query: 284 GTGITPMLQLVRHITKDPTDN 304
GTG P+ ++ H+ +
Sbjct: 107 GTGFAPIKSILEHLLAQGSKR 127
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 42.8 bits (101), Expect = 2e-04
Identities = 32/141 (22%), Positives = 67/141 (47%), Gaps = 19/141 (13%)
Query: 174 GLPIGQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFL 233
GL +GQ +++ + + + Y+P+T + G + ++ + D G + +++
Sbjct: 947 GLTLGQFIAIRGDWDGQQLIGYYSPITLPDDLGVISILAR----------GDKGTLKEWI 996
Query: 234 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQL 293
++ G+ + + G R K+ + +L++IAGGTG+ PMLQ+
Sbjct: 997 SALRPGDSVEMKACGGLR-------IERRPADKQFVFRGHVIRKLALIAGGTGVAPMLQI 1049
Query: 294 VRHITKDP-TDNTK-MSLIFA 312
+R K P D+ + + LI+A
Sbjct: 1050 IRAALKKPYVDSIESIRLIYA 1070
>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 = 41.3 bits (97), Expect = 4e-04
Identities = 32/126 (25%), Positives = 49/126 (38%), Gaps = 26/126 (20%)
Query: 188 NDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDG----GKMSQFLENMKVGEPIN 243
DE RAY+ G + L V++ P F + G MS ++ ++K G+ +
Sbjct: 201 VDEETVRAYSMANYPAEKGIIKLNVRI----ATPPFINSDIPPGIMSSYIFSLKPGDKVT 256
Query: 244 VSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTD 303
+SGP GEF KD ++ I GG G+ PM + K
Sbjct: 257 ISGPF--------GEFFA-----KDTD-----AEMVFIGGGAGMAPMRSHIFDQLKRLKS 298
Query: 304 NTKMSL 309
K+S
Sbjct: 299 KRKISF 304
>gnl|CDD|181300 PRK08221, PRK08221, anaerobic sulfite reductase subunit B;
Provisional.
Length = 263
Score = 40.3 bits (95), Expect = 7e-04
Identities = 33/111 (29%), Positives = 54/111 (48%), Gaps = 27/111 (24%)
Query: 201 SDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 260
SD GY+DL ++ V GK++ + N+K G+ + + GP Y GNG F
Sbjct: 54 SDYGDGYIDLTIR----RV-------GKVTDEIFNLKEGDKLFLRGP-----Y-GNG-F- 94
Query: 261 IRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLIF 311
P K +L ++AGGTG+ P+ L+R+ ++P + + LI
Sbjct: 95 --------PVDTYKGKELIVVAGGTGVAPVKGLMRYFYENPQEIKSLDLIL 137
>gnl|CDD|237337 PRK13289, PRK13289, bifunctional nitric oxide
dioxygenase/dihydropteridine reductase 2; Provisional.
Length = 399
Score = 40.6 bits (96), Expect = 7e-04
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 18/80 (22%)
Query: 225 DGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAG 283
GGK+S +L +++ VG+ + ++ P G +F + S P + +I+G
Sbjct: 227 AGGKVSNYLHDHVNVGDVLELAAPAG--------DFFLDVASDT--P-------VVLISG 269
Query: 284 GTGITPMLQLVRHITKDPTD 303
G GITPML ++ +
Sbjct: 270 GVGITPMLSMLETLAAQQPK 289
>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 = 39.6 bits (93), Expect = 0.001
Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 20/86 (23%)
Query: 230 SQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 289
S +L ++K G+ + ++GP G+ L DP L MIA GTGI P
Sbjct: 106 SNYLCDLKPGDDVQITGPVGKTMLLPE-----------DPNATL-----IMIATGTGIAP 149
Query: 290 MLQLVRHI----TKDPTDNTKMSLIF 311
+R + D L F
Sbjct: 150 FRSFLRRLFREKHADYKFTGLAWLFF 175
>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 = 39.0 bits (91), Expect = 0.002
Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 27/110 (24%)
Query: 201 SDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 260
S GY+DL ++ V GK++ + +K G+ + + GP GNG
Sbjct: 52 SGIGEGYIDLTIR----RV-------GKVTDEVFTLKEGDNLFLRGP------YGNGF-- 92
Query: 261 IRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDNTKMSLI 310
N K +L ++AGGTG+ P+ +V + K+P + ++LI
Sbjct: 93 --------DVDNYKHKELVVVAGGTGVAPVKGVVEYFVKNPKEIKSLNLI 134
>gnl|CDD|181058 PRK07609, PRK07609, CDP-6-deoxy-delta-3,4-glucoseen reductase;
Validated.
Length = 339
Score = 38.7 bits (91), Expect = 0.002
Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 18/73 (24%)
Query: 226 GGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGG 284
GG + + +K + + + GP G F +R S K + ++A G
Sbjct: 171 GGVFTDHVFGALKERDILRIEGPLG--------TFFLREDSDKP---------IVLLASG 213
Query: 285 TGITPMLQLVRHI 297
TG P+ +V H+
Sbjct: 214 TGFAPIKSIVEHL 226
>gnl|CDD|234601 PRK00054, PRK00054, dihydroorotate dehydrogenase electron transfer
subunit; Reviewed.
Length = 250
Score = 37.9 bits (89), Expect = 0.004
Identities = 18/73 (24%), Positives = 36/73 (49%), Gaps = 17/73 (23%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G+ ++ L +K G+ +++ GP LGNG F + + K + ++ GG G
Sbjct: 71 GEGTKKLSKLKEGDELDIRGP------LGNG-FDLEEIGGK----------VLLVGGGIG 113
Query: 287 ITPMLQLVRHITK 299
+ P+ +L + + K
Sbjct: 114 VAPLYELAKELKK 126
>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 = 35.9 bits (84), Expect = 0.015
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 21/72 (29%)
Query: 226 GGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGG 284
GG S+++ E ++VG+ + VS PR H+ +IAGG
Sbjct: 68 GG--SRYMHELLRVGDELEVSAPRNLFPLDEAARRHL------------------LIAGG 107
Query: 285 TGITPMLQLVRH 296
GITP+L + R
Sbjct: 108 IGITPILSMARA 119
>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 = 35.7 bits (83), Expect = 0.017
Identities = 20/72 (27%), Positives = 26/72 (36%), Gaps = 18/72 (25%)
Query: 234 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQL 293
E +K G + V GP GR F + Q+ IAGG GITP L L
Sbjct: 72 ERLKPGTRVTVEGPYGR--------FTFDDRRAR---------QI-WIAGGIGITPFLAL 113
Query: 294 VRHITKDPTDNT 305
+ +
Sbjct: 114 LEALAARGDARP 125
>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 = 35.7 bits (83), Expect = 0.020
Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 19/73 (26%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G+ + L ++K G+ + + GP G V K + +I GG G
Sbjct: 59 GEATSALHDLKEGDKLGIRGPYGN---------GFELVGGK----------VLLIGGGIG 99
Query: 287 ITPMLQLVRHITK 299
I P+ L + K
Sbjct: 100 IAPLAPLAERLKK 112
>gnl|CDD|235481 PRK05464, PRK05464, Na(+)-translocating NADH-quinone reductase
subunit F; Provisional.
Length = 409
Score = 35.2 bits (82), Expect = 0.034
Identities = 35/129 (27%), Positives = 51/129 (39%), Gaps = 32/129 (24%)
Query: 188 NDEFVARAYTPVTSDEHHGYMDLVVKV-----YFKNVHPKFPDGGKMSQFLENMKVGEPI 242
DE V RAY+ E G + L V++ +V P G MS ++ ++K G+ +
Sbjct: 205 VDEPVIRAYSMANYPEEKGIIMLNVRIATPPPGNPDVPP-----GIMSSYIFSLKPGDKV 259
Query: 243 NVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSM--IAGGTGITPMLQLVRHITKD 300
+SGP + GEF K T M I GG G+ PM + K
Sbjct: 260 TISGP-----F---GEFFA------------KDTDAEMVFIGGGAGMAPMRSHIFDQLKR 299
Query: 301 PTDNTKMSL 309
K+S
Sbjct: 300 LKSKRKISF 308
>gnl|CDD|215586 PLN03116, PLN03116, ferredoxin--NADP+ reductase; Provisional.
Length = 307
Score = 34.7 bits (80), Expect = 0.043
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 15/69 (21%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G S FL + K G+ + ++GP G++ L P + T + M+A GTG
Sbjct: 123 GVCSNFLCDAKPGDKVQITGPSGKVMLL--------------PEEDPNATHI-MVATGTG 167
Query: 287 ITPMLQLVR 295
I P +R
Sbjct: 168 IAPFRGFLR 176
>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 = 34.5 bits (80), Expect = 0.046
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 10/63 (15%)
Query: 192 VARAYTPVTSDEHHGYMDL-VVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGR 250
V R YT D G +D+ V +H D G S++ + + G+ + ++GP G
Sbjct: 63 VMRTYTVRRFDPEAGELDIDFV------LHG---DEGPASRWAASAQPGDTLGIAGPGGS 113
Query: 251 LAY 253
Sbjct: 114 FLP 116
>gnl|CDD|203841 pfam08030, NAD_binding_6, Ferric reductase NAD binding domain.
Length = 149
Score = 33.5 bits (77), Expect = 0.058
Identities = 9/36 (25%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 280 MIAGGTGITPMLQLVRHITK--DPTDNTKMSLIFAN 313
++AGG GITP + +++ + K+ +A
Sbjct: 6 LVAGGIGITPFISILKDLGNKSKALKTKKIKFYWAV 41
>gnl|CDD|225426 COG2871, NqrF, Na+-transporting NADH:ubiquinone oxidoreductase,
subunit NqrF [Energy production and conversion].
Length = 410
Score = 34.0 bits (78), Expect = 0.082
Identities = 30/125 (24%), Positives = 51/125 (40%), Gaps = 26/125 (20%)
Query: 189 DEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDG----GKMSQFLENMKVGEPINV 244
DE + RAY+ + E G + L V++ P + G+MS ++ ++K G+ + +
Sbjct: 207 DEPIIRAYSMASYPEEKGIIKLNVRI----ATPPPRNPDAPPGQMSSYIWSLKPGDKVTI 262
Query: 245 SGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTDN 304
SGP GEF + ++ I GG G+ PM + K
Sbjct: 263 SGPF--------GEFFAKDTDA----------EMVFIGGGAGMAPMRSHIFDQLKRLHSK 304
Query: 305 TKMSL 309
K+S
Sbjct: 305 RKISF 309
>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 = 33.5 bits (77), Expect = 0.094
Identities = 31/129 (24%), Positives = 49/129 (37%), Gaps = 24/129 (18%)
Query: 187 INDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSG 246
+ND+FV R +T ++ H D K G ++ FL +
Sbjct: 55 LNDDFV-RTFTVSSAPPHDPATDEFEITVRKK--------GPVTGFLFQV------ARRL 99
Query: 247 PRGRLA--YLG-NGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRHITKDPTD 303
L LG GEF + P ++ IAGG GITP L ++R I
Sbjct: 100 REQGLEVPVLGVGGEFTLSL------PGEGAERKMVWIAGGVGITPFLAMLRAILSSRNT 153
Query: 304 NTKMSLIFA 312
++L+++
Sbjct: 154 TWDITLLWS 162
>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 = 33.5 bits (77), Expect = 0.095
Identities = 23/112 (20%), Positives = 46/112 (41%), Gaps = 27/112 (24%)
Query: 178 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMK 237
GQ+++L RA++ +S G ++L ++ P G + + +K
Sbjct: 39 GQYVNL--QAPGYEGTRAFSIASSPSDAGEIELHIR--------LVPGGIATTYVHKQLK 88
Query: 238 VGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 289
G+ + +SGP G F +R ++ + IAGG+G++
Sbjct: 89 EGDELEISGPYGD--------FFVRDSDQRP---------IIFIAGGSGLSS 123
>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 = 33.1 bits (76), Expect = 0.12
Identities = 25/119 (21%), Positives = 44/119 (36%), Gaps = 30/119 (25%)
Query: 178 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMK 237
GQ + L + + D G + L+V++ G ++ + +K
Sbjct: 28 GQFVFLRNFESPGLERIPLSLAGVDPEEGTISLLVEI-----------RGPKTKLIAELK 76
Query: 238 VGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSM-IAGGTGITPMLQLVR 295
GE ++V GP LGNG K + +AGG G+ P+L + +
Sbjct: 77 PGEKLDVMGP------LGNGFEG------------PKKGGTVLLVAGGIGLAPLLPIAK 117
>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 = 32.7 bits (75), Expect = 0.19
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 19/72 (26%)
Query: 226 GGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGG 284
GG S +L + GE + V GP G+F +R D P + IAGG
Sbjct: 68 GGAFSGWLFGADRTGERLTVRGP--------FGDFWLRP---GDAP-------ILCIAGG 109
Query: 285 TGITPMLQLVRH 296
+G+ P+L ++
Sbjct: 110 SGLAPILAILEQ 121
>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 = 32.6 bits (75), Expect = 0.22
Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 16/85 (18%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G++++ L +K G+ + + GP GNG F + + KD L ++AGG G
Sbjct: 66 GRVTEALHELKPGDTVGLRGP------FGNG-FPVEEMKGKD---------LLLVAGGLG 109
Query: 287 ITPMLQLVRHITKDPTDNTKMSLIF 311
+ P+ L+ +I + D K++L++
Sbjct: 110 LAPLRSLINYILDNREDYGKVTLLY 134
>gnl|CDD|171815 PRK12911, PRK12911, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 1403
Score = 32.9 bits (75), Expect = 0.26
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 218 NVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFH 260
NVH F + F++N+ GEP +V RL +G EF
Sbjct: 89 NVH--FKLAEDAALFIDNVVHGEP-SVPIKSARLYVVGYSEFT 128
>gnl|CDD|225250 COG2375, ViuB, Siderophore-interacting protein [Inorganic ion
transport and metabolism].
Length = 265
Score = 32.0 bits (73), Expect = 0.28
Identities = 23/119 (19%), Positives = 37/119 (31%), Gaps = 21/119 (17%)
Query: 145 LTP-FQRVSFWCSRVVSAPESEPPFH-----FAWLGLPIGQ--HLSLSATINDEF---VA 193
L+P RV + F + L +
Sbjct: 28 LSPHMVRVVLGGEGLAGFASLGFGDQHIKLFFPPPDGDPPRLPVLEERGAVPPGAQRPPQ 87
Query: 194 RAYTPVTSDEHHGYMDL-VVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRL 251
R YT D G +D+ V +H +GG S++ + G+ + + GPRG L
Sbjct: 88 RTYTIRAVDAAAGELDVDFV------LHG---EGGPASRWARTAQPGDTLTIMGPRGSL 137
>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 = 31.9 bits (73), Expect = 0.36
Identities = 25/105 (23%), Positives = 39/105 (37%), Gaps = 27/105 (25%)
Query: 192 VARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGRL 251
V R Y+ +S G++++ V+ HP GG S +L +K G+ I
Sbjct: 99 VPRFYSLASSSSD-GFLEICVRK-----HP----GGLCSGYLHGLKPGDTIKAFIRP--- 145
Query: 252 AYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRH 296
N F P + +I GTGI P+ +R
Sbjct: 146 ----NPSFR--------PAK--GAAPVILIGAGTGIAPLAGFIRA 176
>gnl|CDD|183350 PRK11872, antC, anthranilate dioxygenase reductase; Provisional.
Length = 340
Score = 32.0 bits (73), Expect = 0.38
Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 20/81 (24%)
Query: 224 PDGGKMSQFL-ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIA 282
PDG MS +L E +VG+ I P G F++R V + L +A
Sbjct: 176 PDGV-MSNYLRERCQVGDEILFEAPLG--------AFYLREVERP----------LVFVA 216
Query: 283 GGTGITPMLQLVRHITKDPTD 303
GGTG++ L ++ + +
Sbjct: 217 GGTGLSAFLGMLDELAEQGCS 237
>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 = 30.7 bits (70), Expect = 0.65
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 280 MIAGGTGITPMLQLVRHITK 299
++AGG+GIT +L ++R + +
Sbjct: 111 LVAGGSGITFVLPILRDLLR 130
>gnl|CDD|219701 pfam08021, FAD_binding_9, Siderophore-interacting FAD-binding
domain.
Length = 116
Score = 29.6 bits (67), Expect = 0.90
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 10/58 (17%)
Query: 194 RAYTPVTSDEHHGYMDL-VVKVYFKNVHPKFPDGGKMSQFLENMKVGEPINVSGPRGR 250
R YT + D G +D+ V +H D G S++ + G+ + + GP G
Sbjct: 67 RTYTVRSFDPAAGELDIDFV------LHG---DEGPASRWAARAQPGDTLGIGGPGGS 115
>gnl|CDD|215165 PLN02292, PLN02292, ferric-chelate reductase.
Length = 702
Score = 31.0 bits (70), Expect = 1.0
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 9/59 (15%)
Query: 263 AVSKKDP--PTN---LKVTQLSMIAGGTGITPMLQLVRHITKDPTDNT----KMSLIFA 312
AVS + P P + L+ L M++GG+GITP + ++R + + T K++LI A
Sbjct: 414 AVSVEGPYGPASTDFLRHESLVMVSGGSGITPFISIIRDLIYTSSTETCKIPKITLICA 472
>gnl|CDD|215453 PLN02844, PLN02844, oxidoreductase/ferric-chelate reductase.
Length = 722
Score = 30.6 bits (69), Expect = 1.2
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 273 LKVTQLSMIAGGTGITPMLQLVRHITKDPTDN----TKMSLIFA 312
L+ L ++AGG GITP L +++ I + ++ LI+
Sbjct: 421 LRYDSLLLVAGGIGITPFLSILKEIASQSSSRYRFPKRVQLIYV 464
>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 = 29.9 bits (68), Expect = 1.8
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 17/70 (24%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G S +L +KVG+ + V + P + K + M+ GTG
Sbjct: 199 GLCSSYLAGLKVGQRVTVFIKKSSFKL----------------PKDPKKP-IIMVGPGTG 241
Query: 287 ITPMLQLVRH 296
+ P ++
Sbjct: 242 LAPFRAFLQE 251
>gnl|CDD|217885 pfam04087, DUF389, Domain of unknown function (DUF389). Family
of hypothetical bacterial proteins with an undetermined
function.
Length = 140
Score = 28.6 bits (65), Expect = 2.1
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 36 GYMDLVVKSVPSILVGVGLIVVVGFIISAI 65
G L+ +S+ ++LVGV L ++V ++ +
Sbjct: 20 GDRRLLRRSLKTLLVGVLLAILVSALLGLL 49
>gnl|CDD|182844 PRK10926, PRK10926, ferredoxin-NADP reductase; Provisional.
Length = 248
Score = 29.3 bits (66), Expect = 2.3
Identities = 34/114 (29%), Positives = 47/114 (41%), Gaps = 25/114 (21%)
Query: 178 GQHLSLSATINDEFVARAYTPVTSDEHHGYMDLVVKVYFKNVHPKFPDGGKMSQFLENMK 237
GQ L I+ E V RAY+ V + ++ DL + Y V P+ GK+S L +K
Sbjct: 34 GQFTKLGLEIDGERVQRAYSYVNAPDNP---DL--EFYLVTV----PE-GKLSPRLAALK 83
Query: 238 VGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITPML 291
G+ + V G F + V P L M+A GT I P L
Sbjct: 84 PGDEVQVVSE-------AAGFFVLDEV----PDCE----TLWMLATGTAIGPYL 122
>gnl|CDD|217766 pfam03859, CG-1, CG-1 domain. CG-1 domains are highly conserved
domains of about 130 amino-acid residues containing a
predicted bipartite NLS and named after a partial cDNA
clone isolated from parsley encoding a sequence-specific
DNA-binding protein. CG-1 domains are associated with
CAMTA proteins (for CAlModulin -binding Transcription
Activator) that are transcription factors containing a
calmodulin -binding domain and ankyrins (ANK) motifs.
Length = 119
Score = 28.1 bits (63), Expect = 2.7
Identities = 6/27 (22%), Positives = 10/27 (37%)
Query: 131 ARHRQKKKNPIANILTPFQRVSFWCSR 157
A+ R + I IL F++
Sbjct: 5 AKSRWLRPEEIYAILQNFEKHFITLEP 31
>gnl|CDD|182438 PRK10413, PRK10413, hydrogenase 2 accessory protein HypG;
Provisional.
Length = 82
Score = 27.4 bits (61), Expect = 2.7
Identities = 14/45 (31%), Positives = 26/45 (57%)
Query: 40 LVVKSVPSILVGVGLIVVVGFIISAIQESKSKKKDKASRSSKKEL 84
L+ + P+ L+G ++V VGF +S I E ++K A R + ++
Sbjct: 35 LICEGNPADLLGQWVLVHVGFAMSIIDEDEAKATLDALRQMEYDI 79
>gnl|CDD|226582 COG4097, COG4097, Predicted ferric reductase [Inorganic ion
transport and metabolism].
Length = 438
Score = 29.4 bits (66), Expect = 2.9
Identities = 32/162 (19%), Positives = 51/162 (31%), Gaps = 47/162 (29%)
Query: 134 RQKKKNPIANILTPFQRVSFWC---SRVVSAPESEPPFHFAWLGLPIGQHLSLSATINDE 190
+ P +T QR + + + P FA+L + I +
Sbjct: 209 YFGRSFPYLGKVTAPQRGNVDTLEITIGLQGPWLYQAGQFAFLKIEIEEF---------R 259
Query: 191 FVARAYTPVTSDEHHGYMDLVVKV---YFKNVHPKFPDGGKMSQFLENMKVGEPINVSGP 247
+T S E + +K + K + +N+KVG + V GP
Sbjct: 260 MRPHPFTIACSHEG-SELRFSIKALGDFTKTLK-------------DNLKVGTKLEVDGP 305
Query: 248 RGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 289
G+ + G Q+ IAGG GITP
Sbjct: 306 YGKFDF-ERGLNT----------------QV-WIAGGIGITP 329
>gnl|CDD|118103 pfam09567, RE_MamI, MamI restriction endonuclease. This family
includes the MamI (recognises and cleaves GATNN^NNATC)
restriction endonuclease.
Length = 350
Score = 29.1 bits (64), Expect = 2.9
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 225 DGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEF 259
D G ++QFL ++ +GEP G RG+ L +F
Sbjct: 42 DMGYIAQFLASIVLGEPGGRQGARGKDLVLPGDDF 76
>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 = 3.1
Identities = 26/91 (28%), Positives = 36/91 (39%), Gaps = 21/91 (23%)
Query: 203 EHHGYMDLVVKVYFKNV---HPKFPDGGKMSQFLENMKVGEPINVSGPRGRLAYLGNGEF 259
E GY +L + V K V H G S +L ++K G+ + V GP G + N
Sbjct: 210 ERPGYNNLALTV--KRVTTDHQGNAVRGVASNYLCDLKKGDKVQVIGPFGSTFLMPN--- 264
Query: 260 HIRAVSKKDPPTNLKVTQLSMIAGGTGITPM 290
H + + MI GTG PM
Sbjct: 265 HPES-------------SIMMICTGTGSAPM 282
>gnl|CDD|236247 PRK08345, PRK08345, cytochrome-c3 hydrogenase subunit gamma;
Provisional.
Length = 289
Score = 28.6 bits (64), Expect = 3.7
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 16/64 (25%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G+++ + +K G+ + V GP GNG F P ++ L +IAGG G
Sbjct: 76 GRVTTVIHRLKEGDIVGVRGP------YGNG-F---------PVDEMEGMDLLLIAGGLG 119
Query: 287 ITPM 290
+ P+
Sbjct: 120 MAPL 123
>gnl|CDD|215585 PLN03115, PLN03115, ferredoxin--NADP(+) reductase; Provisional.
Length = 367
Score = 28.8 bits (64), Expect = 3.9
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 16/63 (25%)
Query: 227 GKMSQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
G S FL ++K G + ++GP G+ + KDP + M+A GTG
Sbjct: 183 GVCSNFLCDLKPGAEVKITGPVGK-----------EMLMPKDPNAT-----IIMLATGTG 226
Query: 287 ITP 289
I P
Sbjct: 227 IAP 229
>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 = 4.1
Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 4/55 (7%)
Query: 260 HIRAVSKKDPPTNLKVTQLSMIAGGTGITPMLQLVRH---ITKDPTDNTKMSLIF 311
IR P + T + M+ GTGI P ++ + + L F
Sbjct: 101 FIRPAPSFRLPKDPT-TPIIMVGPGTGIAPFRGFLQERAALRANGKARGPAWLFF 154
>gnl|CDD|198144 smart01076, CG-1, CG-1 domains are highly conserved domains of
about 130 amino-acid residues. The domains contain a
predicted bipartite NLS and are named after a partial
cDNA clone isolated from parsley encoding a
sequence-specific DNA-binding protein. CG-1 domains are
associated with CAMTA proteins (for CAlModulin -binding
Transcription Activator) that are transcription factors
containing a calmodulin -binding domain and ankyrins
(ANK) motifs.
Length = 118
Score = 27.4 bits (61), Expect = 4.7
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 131 ARHRQKKKNPIANILTPFQRVSFW-CSRVVSAPES 164
A+HR IA IL F + + W + + P+S
Sbjct: 4 AKHRWLTPEEIAAILINFDKHTEWLTTSPPTRPKS 38
>gnl|CDD|184438 PRK13985, ureB, urease subunit beta; Provisional.
Length = 568
Score = 28.7 bits (64), Expect = 4.8
Identities = 16/53 (30%), Positives = 22/53 (41%)
Query: 234 ENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTG 286
N+ VG G + G + HI +S + PT +MI GGTG
Sbjct: 109 NNLSVGPATEALAGEGLIVTAGGIDTHIHFISPQQIPTAFASGVTTMIGGGTG 161
>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 = 28.4 bits (64), Expect = 5.1
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 15/61 (24%)
Query: 230 SQFLENMKVGEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGITP 289
S +L +++ G+ I+VS R + F PP++ T L MIA GTG+ P
Sbjct: 200 SSYLSSLRPGDSIHVS-VR-----PSHSAFR--------PPSDPS-TPLIMIAAGTGLAP 244
Query: 290 M 290
Sbjct: 245 F 245
>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 = 28.1 bits (63), Expect = 6.6
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 48 ILVGVGLIVVVGFIISAIQESKSKKKDKASRSSKKELKTLVDPDVKVPLKLKEKI 102
I GV L+++V ++ + + K +A R +K ELK + P+ +EK
Sbjct: 222 IPPGVILLLLVPLLLYKLYPPEIKSSPEAKRWAKTELKEM------GPMTFREKA 270
>gnl|CDD|223446 COG0369, CysJ, Sulfite reductase, alpha subunit (flavoprotein)
[Inorganic ion transport and metabolism].
Length = 587
Score = 27.8 bits (62), Expect = 8.1
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 17/68 (25%)
Query: 230 SQFLENMKV-GEPINVSGPRGRLAYLGNGEFHIRAVSKKDPPTNLKVTQLSMIAGGTGIT 288
S +L ++ G+ I V N F + +DP T + MI GTGI
Sbjct: 410 SGYLADLLEEGDTIPVFVQP-------NKNFRL----PEDPETPI-----IMIGPGTGIA 453
Query: 289 PMLQLVRH 296
P V+
Sbjct: 454 PFRAFVQE 461
>gnl|CDD|233031 TIGR00577, fpg, formamidopyrimidine-DNA glycosylase (fpg). All
proteins in the FPG family with known functions are
FAPY-DNA glycosylases that function in base excision
repair. Homologous to endonuclease VIII (nei). This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 272
Score = 27.7 bits (62), Expect = 8.3
Identities = 10/36 (27%), Positives = 12/36 (33%), Gaps = 8/36 (22%)
Query: 114 ELPSAE--------HVLGKQVIGFDARHRQKKKNPI 141
ELP E VLGK + + R P
Sbjct: 2 ELPEVETVRRGLEPLVLGKTIKSVEVVLRNPVLRPA 37
>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 = 26.9 bits (60), Expect = 8.6
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 34 HHGYMDLVVKSVPSILVGVGLIVVVGFIISAIQESKSKKK 73
Y+ L + S+ + V I++ F IS +KK
Sbjct: 92 SSVYLALAL----SVTLAVLAILIFNFYISVASGISFRKK 127
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
0.319 0.136 0.402
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,106,947
Number of extensions: 1537556
Number of successful extensions: 1704
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1650
Number of HSP's successfully gapped: 107
Length of query: 314
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 217
Effective length of database: 6,635,264
Effective search space: 1439852288
Effective search space used: 1439852288
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.6 bits)