RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15286
(707 letters)
>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 = 263 bits (675), Expect = 3e-81
Identities = 98/177 (55%), Positives = 130/177 (73%), Gaps = 1/177 (0%)
Query: 122 AYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHER 181
Y+PGDHVGIF +N+ +LV +L RL+ PD+ ++L+VL E T+ +IK+W PHER
Sbjct: 31 HYQPGDHVGIFPANRPELVDALLDRLH-DAPPPDQVIKLEVLEERSTALGIIKTWTPHER 89
Query: 182 LPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFP 241
LP +LR L+RYLDITTPP P LLQ AT AT D+E L +L S+ YEDW+ ++ P
Sbjct: 90 LPPCTLRQALTRYLDITTPPTPQLLQLLATLATDEKDKERLEVLGKGSSEYEDWKWYKNP 149
Query: 242 HLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 298
++LEVLE+FPS+ +P +LL+ QL LQPR+YSISSSP +P EIHLTVAVV+YRT+
Sbjct: 150 NILEVLEEFPSLQVPASLLLTQLPLLQPRYYSISSSPDMYPGEIHLTVAVVSYRTRD 206
Score = 181 bits (462), Expect = 8e-51
Identities = 69/125 (55%), Positives = 94/125 (75%), Gaps = 1/125 (0%)
Query: 562 LGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASM 620
G MTLFFGC+ T+D +Y +E + ++ VLT+ + ALSREP PKTYVQDL+K++A
Sbjct: 282 FGDMTLFFGCRNSTIDDIYKEETEEAKNKGVLTEVYTALSREPGKPKTYVQDLLKEQAES 341
Query: 621 LYRELIKEGGHFYVCGDCTMAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDI 680
+Y L++EGGH YVCGD TMAE V QT++ + GN++ + AE+ +L+LRDENRYHEDI
Sbjct: 342 VYDALVREGGHIYVCGDVTMAEDVSQTIQRILAEHGNMSAEEAEEFILKLRDENRYHEDI 401
Query: 681 FGITL 685
FG+TL
Sbjct: 402 FGVTL 406
Score = 135 bits (341), Expect = 3e-34
Identities = 61/139 (43%), Positives = 83/139 (59%), Gaps = 9/139 (6%)
Query: 411 SDQKDSSRESDGSQPVARTT--LGIQMRKPHDCAYEPGDHVGIFASNKWDLVSGILARLN 468
S Q S +S R+T + + + Y+PGDHVGIF +N+ +LV +L RL+
Sbjct: 4 SRQNLQSPKSS------RSTILVKLDTNGAQELHYQPGDHVGIFPANRPELVDALLDRLH 57
Query: 469 LGGIDPDEPMELQVLSETHTSTEVIKSWKPHERLPRASLRTLLSRYLDITTPPPPALLQF 528
PD+ ++L+VL E T+ +IK+W PHERLP +LR L+RYLDITTPP P LLQ
Sbjct: 58 -DAPPPDQVIKLEVLEERSTALGIIKTWTPHERLPPCTLRQALTRYLDITTPPTPQLLQL 116
Query: 529 FATFATAPDDQEILTLLAT 547
AT AT D+E L +L
Sbjct: 117 LATLATDEKDKERLEVLGK 135
Score = 133 bits (338), Expect = 8e-34
Identities = 55/123 (44%), Positives = 76/123 (61%), Gaps = 9/123 (7%)
Query: 255 LPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQGASIH---SDSAAYEDW 311
LPP L LT R+ I++ P P + L + T + S+ YEDW
Sbjct: 90 LPPCTLRQALT----RYLDITTPP--TPQLLQLLATLATDEKDKERLEVLGKGSSEYEDW 143
Query: 312 RHWRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYR 371
+ ++ P++LEVLE+FPS+ +P +LL+ QL LQPR+YSISSSP +P EIHLTVAVV+YR
Sbjct: 144 KWYKNPNILEVLEEFPSLQVPASLLLTQLPLLQPRYYSISSSPDMYPGEIHLTVAVVSYR 203
Query: 372 TQG 374
T+
Sbjct: 204 TRD 206
>gnl|CDD|216051 pfam00667, FAD_binding_1, FAD binding domain. This domain is found
in sulfite reductase, NADPH cytochrome P450 reductase,
Nitric oxide synthase and methionine synthase reductase.
Length = 217
Score = 176 bits (449), Expect = 4e-51
Identities = 75/183 (40%), Positives = 105/183 (57%), Gaps = 14/183 (7%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
Y+ GDH+G++ SN +LV +L L L DPD + L+ L E W H
Sbjct: 41 YQTGDHLGVYPSNDEELVEELLELLGL---DPDTVVSLEALDER---------WVKHPFP 88
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDS--AAYEDWRHWRF 240
P +LR L+ YL+IT PP LL+ A +A+ ++++ L L++D+ Y++W+ +
Sbjct: 89 PPTTLRQALTYYLEITGPPTKQLLEALAQYASDEEEKQRLEKLSSDAGKQEYKEWKLNKA 148
Query: 241 PHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQGAS 300
LLEVLE+FPS LP L+ L LQPR+YSISSSP HPNE+H+TV VV Y T
Sbjct: 149 RTLLEVLEEFPSAQLPAEFLLELLPRLQPRYYSISSSPKVHPNEVHVTVVVVEYETGEGR 208
Query: 301 IHS 303
I
Sbjct: 209 IRK 211
Score = 94.7 bits (236), Expect = 5e-22
Identities = 37/67 (55%), Positives = 46/67 (68%)
Query: 306 AAYEDWRHWRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTV 365
Y++W+ + LLEVLE+FPS LP L+ L LQPR+YSISSSP HPNE+H+TV
Sbjct: 138 QEYKEWKLNKARTLLEVLEEFPSAQLPAEFLLELLPRLQPRYYSISSSPKVHPNEVHVTV 197
Query: 366 AVVTYRT 372
VV Y T
Sbjct: 198 VVVEYET 204
Score = 86.2 bits (214), Expect = 5e-19
Identities = 36/105 (34%), Positives = 56/105 (53%), Gaps = 12/105 (11%)
Query: 443 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 502
Y+ GDH+G++ SN +LV +L L L DPD + L+ L E W H
Sbjct: 41 YQTGDHLGVYPSNDEELVEELLELLGL---DPDTVVSLEALDER---------WVKHPFP 88
Query: 503 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLAT 547
P +LR L+ YL+IT PP LL+ A +A+ ++++ L L++
Sbjct: 89 PPTTLRQALTYYLEITGPPTKQLLEALAQYASDEEEKQRLEKLSS 133
>gnl|CDD|99801 cd06204, CYPOR, NADPH cytochrome p450 reductase (CYPOR) serves as
an electron donor in several oxygenase systems and is a
component of nitric oxide synthases and methionine
synthase reductases. CYPOR transfers two electrons from
NADPH to the heme of cytochrome p450 via FAD and FMN.
Ferredoxin-NADP+ (oxido)reductase is an FAD-containing
enzyme that catalyzes the reversible electron transfer
between NADP(H) and electron carrier proteins such as
ferredoxin and flavodoxin. Isoforms of these
flavoproteins (i.e. having a non-covalently bound FAD as
a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
betweed the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 416
Score = 143 bits (362), Expect = 6e-37
Identities = 67/184 (36%), Positives = 89/184 (48%), Gaps = 14/184 (7%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
Y+ GDH+ ++ +N + V +L L L D D + L+ L E + K
Sbjct: 38 YQTGDHLAVWPTNPSEEVERLLKVLGLD--DRDTVISLKSLDE--------PASKKVPFP 87
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDS-AAYEDWRHWRFP 241
+ RT L YLDIT P +L A FA P+++E L LA++ Y W
Sbjct: 88 CPTTYRTALRHYLDITAPVSRQVLAALAQFAPDPEEKERLLKLASEGKDEYAKWIVEPHR 147
Query: 242 HLLEVLEQFPSI---HLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 298
+LLEVL+ FPS P L+ L LQPR+YSISSS HPN IH+T VV Y T
Sbjct: 148 NLLEVLQDFPSAKPTPPPFDFLIELLPRLQPRYYSISSSSKVHPNRIHITAVVVKYPTPT 207
Query: 299 ASIH 302
I
Sbjct: 208 GRII 211
Score = 115 bits (290), Expect = 2e-27
Identities = 45/122 (36%), Positives = 65/122 (53%), Gaps = 4/122 (3%)
Query: 561 ELGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEAS 619
++G LFFGC+ D +Y DE + L + A SRE K YVQ + + A
Sbjct: 296 KVGPTLLFFGCRHPDEDFIYKDELEEYAKLGGLLELVTAFSREQP-KKVYVQHRLAEHAE 354
Query: 620 MLYRELIKEGGHFYVCGDC-TMAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHE 678
++ ELI EG + YVCGD MA V +TL + +G +TE AE+ + +L+ RY E
Sbjct: 355 QVW-ELINEGAYIYVCGDAKNMARDVEKTLLEILAEQGGMTETEAEEYVKKLKTRGRYQE 413
Query: 679 DI 680
D+
Sbjct: 414 DV 415
Score = 78.5 bits (194), Expect = 3e-15
Identities = 33/80 (41%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 303 SDSAAYEDWRHWRFPHLLEVLEQFPSI---HLPPALLVAQLTPLQPRFYSISSSPLAHPN 359
Y W +LLEVL+ FPS P L+ L LQPR+YSISSS HPN
Sbjct: 133 EGKDEYAKWIVEPHRNLLEVLQDFPSAKPTPPPFDFLIELLPRLQPRYYSISSSSKVHPN 192
Query: 360 EIHLTVAVVTYRTQGLSKVH 379
IH+T VV Y T +
Sbjct: 193 RIHITAVVVKYPTPTGRIIK 212
Score = 71.9 bits (177), Expect = 3e-13
Identities = 33/106 (31%), Positives = 50/106 (47%), Gaps = 10/106 (9%)
Query: 443 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 502
Y+ GDH+ ++ +N + V +L L L D D + L+ L E + K
Sbjct: 38 YQTGDHLAVWPTNPSEEVERLLKVLGLD--DRDTVISLKSLDE--------PASKKVPFP 87
Query: 503 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATK 548
+ RT L YLDIT P +L A FA P+++E L LA++
Sbjct: 88 CPTTYRTALRHYLDITAPVSRQVLAALAQFAPDPEEKERLLKLASE 133
>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 = 124 bits (313), Expect = 1e-31
Identities = 73/254 (28%), Positives = 104/254 (40%), Gaps = 33/254 (12%)
Query: 443 YEPGDHVGIFASNK-----WDLVSGILARLNLGGIDPDEPMELQVLSETHTSTE------ 491
Y+PGDH+G+ N + + S DP E L V ++ +
Sbjct: 32 YQPGDHLGVIPPNPLQPRYYSIASSPDV-------DPGEV-HLCVRVVSYEAPAGRIRKG 83
Query: 492 VIKSWKPHERLPRASLRTLLSRYLDITTPPPPALLQFFATFAT--APDDQEILTLLATKM 549
V ++ A + + P P T AP +
Sbjct: 84 VCSNFL-AGLQLGAKVTVFIRPAPSFRLPKDPTTPIIMVGPGTGIAP--------FRGFL 134
Query: 550 QNSRVIKFGLQELGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKT 608
Q ++ + G LFFGC+ D LY +E + L LT+ +A SRE PK
Sbjct: 135 QERAALRANGKARGPAWLFFGCRNFASDYLYREELQEALKDGALTRLDVAFSREQAEPKV 194
Query: 609 YVQDLMKKEASMLYRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLL 667
YVQD +K+ A L R L+ EG H YVCGD MA+ V L + G + E +AE+ L
Sbjct: 195 YVQDKLKEHAEEL-RRLLNEGAHIYVCGDAKSMAKDVEDALVKIIAKAGGVDESDAEEYL 253
Query: 668 LRLRDENRYHEDIF 681
L DE RY ED++
Sbjct: 254 KELEDEGRYVEDVW 267
Score = 57.3 bits (139), Expect = 5e-09
Identities = 22/45 (48%), Positives = 26/45 (57%)
Query: 258 ALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQGASIH 302
L V PLQPR+YSI+SSP P E+HL V VV+Y I
Sbjct: 37 HLGVIPPNPLQPRYYSIASSPDVDPGEVHLCVRVVSYEAPAGRIR 81
Score = 56.6 bits (137), Expect = 1e-08
Identities = 21/39 (53%), Positives = 25/39 (64%)
Query: 334 ALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRT 372
L V PLQPR+YSI+SSP P E+HL V VV+Y
Sbjct: 37 HLGVIPPNPLQPRYYSIASSPDVDPGEVHLCVRVVSYEA 75
>gnl|CDD|99796 cd06199, SiR, 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.
Length = 360
Score = 126 bits (318), Expect = 1e-31
Identities = 57/176 (32%), Positives = 76/176 (43%), Gaps = 31/176 (17%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
YEPGD +G++ +N LV +LA L L DEP+
Sbjct: 31 YEPGDALGVYPTNDPALVDELLAALGL---SGDEPVSTV---------------GGGTL- 71
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFPH 242
LR L ++ +ITT L A D + L A + R
Sbjct: 72 ---PLREALIKHYEITTLLLALLES------YAADTGALELLALAALEAVLAFAELR--D 120
Query: 243 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 298
+L++L P L L+ L PLQPR YSI+SSP A P+E+HLTVAVV Y + G
Sbjct: 121 VLDLLPIPP-ARLTAEELLDLLRPLQPRLYSIASSPKAVPDEVHLTVAVVRYESHG 175
Score = 105 bits (265), Expect = 1e-24
Identities = 49/121 (40%), Positives = 67/121 (55%), Gaps = 4/121 (3%)
Query: 563 GKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASML 621
GK LFFG + D LY DE + L VLT+ A SR+ K YVQD M+++ + L
Sbjct: 242 GKNWLFFGERHFATDFLYQDELQQWLKDGVLTRLDTAFSRD-QAEKVYVQDRMREQGAEL 300
Query: 622 YRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDI 680
+ ++EG HFYVCGD MA+ V L + EG + E+ AE L L+ E RY D+
Sbjct: 301 W-AWLEEGAHFYVCGDAKRMAKDVDAALLDIIATEGGMDEEEAEAYLKELKKEKRYQRDV 359
Query: 681 F 681
+
Sbjct: 360 Y 360
Score = 85.4 bits (212), Expect = 8e-18
Identities = 31/71 (43%), Positives = 40/71 (56%), Gaps = 3/71 (4%)
Query: 304 DSAAYEDWRHWRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHL 363
A + R +L++L P L L+ L PLQPR YSI+SSP A P+E+HL
Sbjct: 108 ALEAVLAFAELR--DVLDLLPIPP-ARLTAEELLDLLRPLQPRLYSIASSPKAVPDEVHL 164
Query: 364 TVAVVTYRTQG 374
TVAVV Y + G
Sbjct: 165 TVAVVRYESHG 175
Score = 48.8 bits (117), Expect = 6e-06
Identities = 29/106 (27%), Positives = 42/106 (39%), Gaps = 26/106 (24%)
Query: 443 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 502
YEPGD +G++ +N LV +LA L L DEP+
Sbjct: 31 YEPGDALGVYPTNDPALVDELLAALGL---SGDEPVSTV---------------GGGTL- 71
Query: 503 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATK 548
LR L ++ +ITT LL ++A E+L L A +
Sbjct: 72 ---PLREALIKHYEITTL----LLALLESYAADTGALELLALAALE 110
>gnl|CDD|223446 COG0369, CysJ, Sulfite reductase, alpha subunit (flavoprotein)
[Inorganic ion transport and metabolism].
Length = 587
Score = 123 bits (310), Expect = 2e-29
Identities = 80/303 (26%), Positives = 114/303 (37%), Gaps = 62/303 (20%)
Query: 1 MLGELGGERLLKLRAGDEMCGQEQAFRSWAPEVFNVACETFCLDDDETLSDATQVISSVT 60
L ELG RL D + E A W +V + F + QV +S
Sbjct: 157 RLQELGATRLFPRVEAD-VQDFEAAAAPWRDDVLELLKSKFPGQ----EAAPAQVATSPQ 211
Query: 61 LNASTVRFLPMT---TADSLVTGLSKVHSRKVWQCPLIKKWNLYGSQPVARTTLGIQMRK 117
+ + P + +TG + V I++
Sbjct: 212 SESPYSKPAPSVAILLENRKLTGRD--SDKDVRH---------------------IELDL 248
Query: 118 P-HDCAYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSW 176
P YEPGD +G++ N +LV L L L +P + V ET
Sbjct: 249 PDSGLRYEPGDALGVWPENDPELVDEFLELLGLDPEEP-----VTVDGET---------- 293
Query: 177 KPHERLPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLAT-DSAAYEDW 235
L L + + T+ P LL+ A FA + + +L L D Y
Sbjct: 294 --------LPLVEALKSHFEFTSAPKS-LLENLAHFAGQEELRRLLEQLDIADLQDYAKR 344
Query: 236 RHWRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYR 295
R L++VL FP LP L+ L PL+PR YSI+SSP P+E+HLTV VV Y+
Sbjct: 345 RT-----LIDVLRDFPPAKLPAEELIDLLPPLKPRLYSIASSPGVSPDEVHLTVGVVRYQ 399
Query: 296 TQG 298
+G
Sbjct: 400 AEG 402
Score = 112 bits (281), Expect = 1e-25
Identities = 51/124 (41%), Positives = 71/124 (57%), Gaps = 4/124 (3%)
Query: 559 LQELGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKE 617
GK LFFGC+ T D LY +E + L VLT+ LA SR+ K YVQD ++++
Sbjct: 465 NGAEGKNWLFFGCRHFTEDFLYQEEWEEYLKDGVLTRLDLAFSRDQE-EKIYVQDRLREQ 523
Query: 618 ASMLYRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRY 676
A L+ E ++EG H YVCGD MA+ V + L + EG L+ + AE+ L L+ E RY
Sbjct: 524 ADELW-EWLEEGAHIYVCGDAKGMAKDVEEALLDILAKEGGLSREEAEEYLKELKKEGRY 582
Query: 677 HEDI 680
D+
Sbjct: 583 QRDV 586
Score = 77.5 bits (191), Expect = 1e-14
Identities = 29/56 (51%), Positives = 38/56 (67%)
Query: 319 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 374
L++VL FP LP L+ L PL+PR YSI+SSP P+E+HLTV VV Y+ +G
Sbjct: 347 LIDVLRDFPPAKLPAEELIDLLPPLKPRLYSIASSPGVSPDEVHLTVGVVRYQAEG 402
Score = 50.9 bits (122), Expect = 2e-06
Identities = 27/112 (24%), Positives = 40/112 (35%), Gaps = 24/112 (21%)
Query: 437 KPHDCAYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSW 496
YEPGD +G++ N +LV L L L +P + V ET
Sbjct: 249 PDSGLRYEPGDALGVWPENDPELVDEFLELLGLDPEEP-----VTVDGET---------- 293
Query: 497 KPHERLPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATK 548
L L + + T+ P LL+ A FA + + +L L
Sbjct: 294 --------LPLVEALKSHFEFTSAPKS-LLENLAHFAGQEELRRLLEQLDIA 336
>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 = 116 bits (292), Expect = 6e-28
Identities = 59/175 (33%), Positives = 94/175 (53%), Gaps = 13/175 (7%)
Query: 122 AYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHER 181
+YE GD++GI+ N LV LARL L D D+ + ++ + +
Sbjct: 30 SYETGDNLGIYPENSDALVDEFLARLGL---DGDDVVRVEPNEQQRGKPPFPEP------ 80
Query: 182 LPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFP 241
S+R LL ++LDI P L+ + AT +++E L LA+ E R+ ++
Sbjct: 81 ---ISVRQLLKKFLDIFGKPTKKFLKLLSQLATDEEEKEDLYKLASREGRTEYKRYEKY- 136
Query: 242 HLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRT 296
LEVL+ FPS+ L+ ++PR+YSISSSPL +PNE+HL V++V+++T
Sbjct: 137 TYLEVLKDFPSVRPTLEQLLELCPLIKPRYYSISSSPLKNPNEVHLLVSLVSWKT 191
Score = 88.5 bits (220), Expect = 9e-19
Identities = 39/119 (32%), Positives = 62/119 (52%), Gaps = 3/119 (2%)
Query: 560 QELGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEA 618
E+G + L+FGC+ + D LY +E + VLT A SR+ K YVQDL+++ +
Sbjct: 260 PEIGPVLLYFGCRHEDKDYLYKEELEEYEKSGVLTTLGTAFSRDQP-KKVYVQDLIRENS 318
Query: 619 SMLYRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRY 676
++Y+ L + G YVCG M V + + + + G E+ AEK + L + RY
Sbjct: 319 DLVYQLLEEGAGVIYVCGSTWKMPPDVQEAFEEILKKHGGGDEELAEKKIEELEERGRY 377
Score = 73.5 bits (181), Expect = 8e-14
Identities = 26/55 (47%), Positives = 39/55 (70%)
Query: 318 HLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRT 372
LEVL+ FPS+ L+ ++PR+YSISSSPL +PNE+HL V++V+++T
Sbjct: 137 TYLEVLKDFPSVRPTLEQLLELCPLIKPRYYSISSSPLKNPNEVHLLVSLVSWKT 191
Score = 52.3 bits (126), Expect = 4e-07
Identities = 31/109 (28%), Positives = 51/109 (46%), Gaps = 12/109 (11%)
Query: 442 AYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHER 501
+YE GD++GI+ N LV LARL L D D+ + ++ + +
Sbjct: 30 SYETGDNLGIYPENSDALVDEFLARLGL---DGDDVVRVEPNEQQRGKPPFPEP------ 80
Query: 502 LPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATKMQ 550
S+R LL ++LDI P L+ + AT +++E L LA++
Sbjct: 81 ---ISVRQLLKKFLDIFGKPTKKFLKLLSQLATDEEEKEDLYKLASREG 126
>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 = 110 bits (276), Expect = 7e-26
Identities = 61/172 (35%), Positives = 87/172 (50%), Gaps = 7/172 (4%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
Y+PGD +GI N V +L RL L D+P E++V+ T + P
Sbjct: 31 YQPGDTIGILPPNTASEVESLLKRLGLLEQA-DQPCEVKVVPNTKKKNAKV----PVHIP 85
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLAT--DSAAYEDWRHWRF 240
+LRT+L+ LDI P LL+ A F + +++ L L + S Y D+ R
Sbjct: 86 KVVTLRTILTWCLDIRAIPKKPLLRALAEFTSDDNEKRRLEELCSKQGSEDYTDFVRKRG 145
Query: 241 PHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVV 292
LL++LE FPS P +LL+ L LQPR YSI+SSPL P ++ +VV
Sbjct: 146 LSLLDLLEAFPSCRPPLSLLIEHLPRLQPRPYSIASSPLEGPGKLRFIFSVV 197
Score = 94.3 bits (235), Expect = 1e-20
Identities = 45/125 (36%), Positives = 66/125 (52%), Gaps = 4/125 (3%)
Query: 560 QELGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREP--TIPKTYVQDLMKK 616
G+ LFFGC+ + D L+ DE + L++ +LT+ +A SR+ YVQD +++
Sbjct: 273 TVFGEAWLFFGCRHRDRDYLFRDELEEFLEEGILTRLIVAFSRDENDGSTPKYVQDKLEE 332
Query: 617 EASMLYRELIKEGGHFYVCGDC-TMAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENR 675
L L+ YVCGD MA+ V T + E L + A+KLL RLR E+R
Sbjct: 333 RGKKLVDLLLNSNAKIYVCGDAKGMAKDVRDTFVDILSKELGLDKLEAKKLLARLRKEDR 392
Query: 676 YHEDI 680
Y ED+
Sbjct: 393 YLEDV 397
Score = 62.0 bits (151), Expect = 4e-10
Identities = 31/73 (42%), Positives = 42/73 (57%)
Query: 304 DSAAYEDWRHWRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHL 363
S Y D+ R LL++LE FPS P +LL+ L LQPR YSI+SSPL P ++
Sbjct: 133 GSEDYTDFVRKRGLSLLDLLEAFPSCRPPLSLLIEHLPRLQPRPYSIASSPLEGPGKLRF 192
Query: 364 TVAVVTYRTQGLS 376
+VV + +GL
Sbjct: 193 IFSVVEFPAKGLC 205
Score = 60.8 bits (148), Expect = 9e-10
Identities = 33/110 (30%), Positives = 51/110 (46%), Gaps = 5/110 (4%)
Query: 443 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 502
Y+PGD +GI N V +L RL L D+P E++V+ T + P
Sbjct: 31 YQPGDTIGILPPNTASEVESLLKRLGLLEQA-DQPCEVKVVPNTKKKNAKV----PVHIP 85
Query: 503 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATKMQNS 552
+LRT+L+ LDI P LL+ A F + +++ L L +K +
Sbjct: 86 KVVTLRTILTWCLDIRAIPKKPLLRALAEFTSDDNEKRRLEELCSKQGSE 135
>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 = 107 bits (270), Expect = 4e-25
Identities = 57/191 (29%), Positives = 87/191 (45%), Gaps = 21/191 (10%)
Query: 105 PVARTTLGIQMRKPHDCAYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLS 164
V + +++R P Y GD++ + N +LV L R G+ D + +
Sbjct: 12 GVGPSKRHLELRLPDGMTYRAGDYLAVLPRNPPELVRRALRRF---GLAWDTVLTISASG 68
Query: 165 ETH---TSTEVIKSWKPHERLPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEI 221
T + S+ LLS Y++++ P L A PD + +
Sbjct: 69 SATGLPLGTPI-------------SVSELLSSYVELSQPATRRQLAALAEATRCPDTKAL 115
Query: 222 LTLLATDSAAYEDWRHWRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAH 281
L LA + AY + +L++LE+FPSI LP A +A L P++PR YSISSSPL
Sbjct: 116 LERLAGE--AYAAEVLAKRVSVLDLLERFPSIALPLATFLAMLPPMRPRQYSISSSPLVD 173
Query: 282 PNEIHLTVAVV 292
P LTV+V+
Sbjct: 174 PGHATLTVSVL 184
Score = 80.4 bits (199), Expect = 5e-16
Identities = 43/127 (33%), Positives = 63/127 (49%), Gaps = 7/127 (5%)
Query: 560 QELGKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEA 618
++L LFFGC+ D LY DE + V++ A SR P YVQD + E
Sbjct: 260 RKLAPALLFFGCRHPDHDDLYRDELEEWEAAGVVS-VRRAYSRPPGGGCRYVQDRLWAER 318
Query: 619 SMLYRELIKEGGHFYVCGDCTMAEHVYQTLKYVFQHEGNL----TEQNAEKLLLRLRDEN 674
+ EL ++G YVCGD MA V + LK ++ + ++ AE+ L LR++
Sbjct: 319 EEV-WELWEQGARVYVCGDGRMAPGVREVLKRIYAEKDERGGGSDDEEAEEWLEELRNKG 377
Query: 675 RYHEDIF 681
RY D+F
Sbjct: 378 RYATDVF 384
Score = 72.3 bits (178), Expect = 2e-13
Identities = 28/50 (56%), Positives = 37/50 (74%)
Query: 319 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVV 368
+L++LE+FPSI LP A +A L P++PR YSISSSPL P LTV+V+
Sbjct: 135 VLDLLERFPSIALPLATFLAMLPPMRPRQYSISSSPLVDPGHATLTVSVL 184
Score = 48.4 bits (116), Expect = 8e-06
Identities = 27/125 (21%), Positives = 46/125 (36%), Gaps = 19/125 (15%)
Query: 425 PVARTTLGIQMRKPHDCAYEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLS 484
V + +++R P Y GD++ + N +LV L R G+ D + +
Sbjct: 12 GVGPSKRHLELRLPDGMTYRAGDYLAVLPRNPPELVRRALRRF---GLAWDTVLTISASG 68
Query: 485 ETH---TSTEVIKSWKPHERLPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEI 541
T + S+ LLS Y++++ P L A PD + +
Sbjct: 69 SATGLPLGTPI-------------SVSELLSSYVELSQPATRRQLAALAEATRCPDTKAL 115
Query: 542 LTLLA 546
L LA
Sbjct: 116 LERLA 120
>gnl|CDD|235745 PRK06214, PRK06214, sulfite reductase; Provisional.
Length = 530
Score = 100 bits (251), Expect = 3e-22
Identities = 52/176 (29%), Positives = 71/176 (40%), Gaps = 32/176 (18%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
YE GD +G+F +N LV ++A L G P+ P+ +
Sbjct: 202 YEVGDSLGLFPANDPALVDAVIAAL---GAPPEFPIGGK--------------------- 237
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFPH 242
+LR L + + P P L + + + T ++ LA D
Sbjct: 238 ---TLREALLEDVSLG-PAPDGLFELLS-YITGGAARKKARALAAGEDPDGDAATL---D 289
Query: 243 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 298
+L LE+FP I P V L PLQPR YSISSSP A P + LTV V Y
Sbjct: 290 VLAALEKFPGIRPDPEAFVEALDPLQPRLYSISSSPKATPGRVSLTVDAVRYEIGS 345
Score = 85.1 bits (211), Expect = 3e-17
Identities = 45/121 (37%), Positives = 64/121 (52%), Gaps = 4/121 (3%)
Query: 563 GKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASML 621
G+ LFFG Q D Y DE + + VLT+ LA SR+ KTYVQD M++ + L
Sbjct: 412 GRNWLFFGHQRSATDFFYEDELNGLKAAGVLTRLSLAWSRDGE-EKTYVQDRMRENGAEL 470
Query: 622 YRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDI 680
++ L +EG HFYVCGD MA+ V + L + G + A + L+ RY D+
Sbjct: 471 WKWL-EEGAHFYVCGDAKRMAKDVERALVDIVAQFGGRSPDEAVAFVAELKKAGRYQADV 529
Query: 681 F 681
+
Sbjct: 530 Y 530
Score = 73.2 bits (180), Expect = 2e-13
Identities = 28/55 (50%), Positives = 30/55 (54%)
Query: 320 LEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 374
L LE+FP I P V L PLQPR YSISSSP A P + LTV V Y
Sbjct: 291 LAALEKFPGIRPDPEAFVEALDPLQPRLYSISSSPKATPGRVSLTVDAVRYEIGS 345
Score = 39.7 bits (93), Expect = 0.006
Identities = 20/67 (29%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 443 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 502
YE GD +G+F +N LV ++A L G P+ P+ + L E +V P
Sbjct: 202 YEVGDSLGLFPANDPALVDAVIAAL---GAPPEFPIGGKTLRE-ALLEDVSLGPAPDGLF 257
Query: 503 PRASLRT 509
S T
Sbjct: 258 ELLSYIT 264
>gnl|CDD|233643 TIGR01931, cysJ, sulfite reductase [NADPH] flavoprotein,
alpha-component. This model describes an
NADPH-dependent sulfite reductase flavoprotein subunit.
Most members of this family are found in Cys
biosynthesis gene clusters. The closest homologs below
the trusted cutoff are designated as subunits nitrate
reductase.
Length = 597
Score = 89.0 bits (221), Expect = 2e-18
Identities = 50/121 (41%), Positives = 69/121 (57%), Gaps = 4/121 (3%)
Query: 563 GKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASML 621
GK LFFG T D LY E L + VLTK LA SR+ K YVQ ++++ + L
Sbjct: 479 GKNWLFFGNPHFTTDFLYQVEWQNYLKKGVLTKMDLAFSRD-QAEKIYVQHRIREQGAEL 537
Query: 622 YRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDI 680
+ + ++EG H YVCGD MA+ V+Q L + EG+L + AE+ L LR E RY D+
Sbjct: 538 W-QWLQEGAHIYVCGDAKKMAKDVHQALLDIIAKEGHLDAEEAEEYLTDLRVEKRYQRDV 596
Query: 681 F 681
+
Sbjct: 597 Y 597
Score = 79.7 bits (197), Expect = 2e-15
Identities = 53/177 (29%), Positives = 82/177 (46%), Gaps = 33/177 (18%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
YEPGD +G++ N LV IL LN +DPDE + + + I
Sbjct: 268 YEPGDALGVWYKNDPALVKEILKLLN---LDPDEKVTIG--------GKTI--------- 307
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFPH 242
L L + ++T P LL+ +A +E+ L+A + E + +
Sbjct: 308 ---PLFEALITHFELTQNTKP-LLEAYAELTGN---KELKALIADN----EKLKAYIQNT 356
Query: 243 -LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 298
L++++ +P+ L L++ L PL PR YSISSS +E+HLTV VV Y+ G
Sbjct: 357 PLIDLIRDYPA-DLDAEQLISLLRPLTPRLYSISSSQSEVGDEVHLTVGVVRYQAHG 412
Score = 57.8 bits (140), Expect = 1e-08
Identities = 24/56 (42%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 319 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 374
L++++ +P+ L L++ L PL PR YSISSS +E+HLTV VV Y+ G
Sbjct: 358 LIDLIRDYPA-DLDAEQLISLLRPLTPRLYSISSSQSEVGDEVHLTVGVVRYQAHG 412
Score = 34.3 bits (79), Expect = 0.22
Identities = 17/35 (48%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 443 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEP 477
YEPGD +G++ N LV IL LN +DPDE
Sbjct: 268 YEPGDALGVWYKNDPALVKEILKLLN---LDPDEK 299
>gnl|CDD|182862 PRK10953, cysJ, sulfite reductase subunit alpha; Provisional.
Length = 600
Score = 74.4 bits (183), Expect = 7e-14
Identities = 47/121 (38%), Positives = 67/121 (55%), Gaps = 4/121 (3%)
Query: 563 GKMTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASML 621
GK LFFG T D LY E + + + +LT+ LA SR+ K YVQD ++++ + L
Sbjct: 482 GKNWLFFGNPHFTEDFLYQVEWQRYVKEGLLTRIDLAWSRDQK-EKIYVQDKLREQGAEL 540
Query: 622 YRELIKEGGHFYVCGDCT-MAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDI 680
+R I +G H YVCGD MA+ V Q L V G + + A++ L LR E RY D+
Sbjct: 541 WR-WINDGAHIYVCGDANRMAKDVEQALLEVIAEFGGMDTEAADEFLSELRVERRYQRDV 599
Query: 681 F 681
+
Sbjct: 600 Y 600
Score = 67.1 bits (164), Expect = 2e-11
Identities = 52/184 (28%), Positives = 80/184 (43%), Gaps = 37/184 (20%)
Query: 123 YEPGDHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKPHERL 182
Y+PGD +G++ N LV ++ L L G DEP+ + + L
Sbjct: 271 YQPGDALGVWYQNDPALVKELVELLWLKG---DEPVTVD-----------------GKTL 310
Query: 183 PRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFPH 242
P L L + ++T +AT + +L L+ D AA + + P
Sbjct: 311 P---LAEALQWHFELTVNTA----NIVENYATLTRSETLLPLVG-DKAALQHYAA-TTP- 360
Query: 243 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTY------RT 296
+++++ P+ L L+ L PL PR YSI+SS NE+H+TV VV Y R
Sbjct: 361 IVDMVRFAPA-QLDAEQLIGLLRPLTPRLYSIASSQAEVENEVHITVGVVRYDIEGRARA 419
Query: 297 QGAS 300
GAS
Sbjct: 420 GGAS 423
Score = 50.5 bits (121), Expect = 3e-06
Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 319 LLEVLEQFPSIHLPPALLVAQLTPLQPRFYSISSSPLAHPNEIHLTVAVVTYRTQG 374
+++++ P+ L L+ L PL PR YSI+SS NE+H+TV VV Y +G
Sbjct: 361 IVDMVRFAPA-QLDAEQLIGLLRPLTPRLYSIASSQAEVENEVHITVGVVRYDIEG 415
Score = 31.2 bits (71), Expect = 2.2
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 403 APVTVQFRSDQKDSSRESDGSQPVARTTLGIQ-MRKPHDCAYEPGDHVGIFASNKWDLVS 461
AP+T +QK + R S+ LG +R Y+PGD +G++ N LV
Sbjct: 236 APLTASLSVNQKITGRNSEKDVRHIEIDLGDSGLR------YQPGDALGVWYQNDPALVK 289
Query: 462 GILARLNLGGIDPDEPMELQ 481
++ L L G DEP+ +
Sbjct: 290 ELVELLWLKG---DEPVTVD 306
>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 = 65.3 bits (159), Expect = 4e-11
Identities = 41/121 (33%), Positives = 53/121 (43%), Gaps = 14/121 (11%)
Query: 561 ELGKMTLFFGCQLKTMDLYSDEKSKMLDQKVLTKSFL----ALSREPTIPKTYVQDLMKK 616
E GK+ LFFG + K Y K L K F+ A SR P PK YVQD +++
Sbjct: 297 EGGKLMLFFGARTKEELPYFGPLQK------LPKDFIDINFAFSRTPEQPKRYVQDAIRE 350
Query: 617 EASMLYRELIKEGGHFYVCGDCTMAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRY 676
A+ + L + Y+CG M E V + V G + E L RLR E R
Sbjct: 351 RAADVAALLKDPNTYIYICGLKGMEEGVLDAFRDVCATNG----LSWETLEPRLRAEGRL 406
Query: 677 H 677
H
Sbjct: 407 H 407
>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 = 63.1 bits (154), Expect = 8e-11
Identities = 39/136 (28%), Positives = 51/136 (37%), Gaps = 19/136 (13%)
Query: 549 MQNSRVIKFGLQELGKMTLFFGCQLKTMDLYSDEKSKMLDQKVLTKSFL----ALSREPT 604
+ KF G LFFG LY DE K Q A SRE
Sbjct: 159 REKHADYKFT----GLAWLFFGVPNSDSLLYDDELEKYPKQ---YPDNFRIDYAFSREQK 211
Query: 605 I---PKTYVQDLMKKEASMLYRELIKEGGHFYVCGDCTMAEHVYQTLKYVFQHEGNLTEQ 661
K YVQD + + A ++ L K+ H Y+CG M V L V + G E+
Sbjct: 212 NADGGKMYVQDRIAEYAEEIWNLLDKDNTHVYICGLKGMEPGVDDALTSVAE-GGLAWEE 270
Query: 662 NAEKLLLRLRDENRYH 677
E L+ + R+H
Sbjct: 271 FWES----LKKKGRWH 282
>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 = 53.5 bits (129), Expect = 1e-07
Identities = 37/118 (31%), Positives = 57/118 (48%), Gaps = 12/118 (10%)
Query: 565 MTLFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASMLYR 623
M L++G + D LY DE + L LT+ A SR P YVQD ++ +A L R
Sbjct: 183 MHLYWGGRDPASDFLYEDELDQYLADGRLTQLHTAFSRTPD--GAYVQDRLRADAERL-R 239
Query: 624 ELIKEGGHFYVCGDCTMAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDIF 681
LI++G VCG MA+ V L+ + + ++ L+ + RY ED++
Sbjct: 240 RLIEDGAQIMVCGSRAMAQGVAAVLEEILAPQPLSLDE--------LKLQGRYAEDVY 289
>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 = 47.3 bits (113), Expect = 1e-06
Identities = 15/86 (17%), Positives = 30/86 (34%), Gaps = 6/86 (6%)
Query: 563 GKMTLFFGCQLKTMDLYSDEKSKMLDQ--KVLTKSFLALSREPTIPKTYVQDLMKKEASM 620
++ L +G + + L +E ++ + + + K YV D + +E
Sbjct: 25 TEVYLVYGNRTEDDLLLREELEELAKKYPNLKVVAVSRTDDGWYGRKGYVTDALLEEHL- 83
Query: 621 LYRELIKEGGHFYVCGDCTMAEHVYQ 646
YVCG M + V +
Sbjct: 84 ---SEDLGDTDVYVCGPPPMMKAVRK 106
>gnl|CDD|215586 PLN03116, PLN03116, ferredoxin--NADP+ reductase; Provisional.
Length = 307
Score = 50.5 bits (121), Expect = 1e-06
Identities = 41/139 (29%), Positives = 64/139 (46%), Gaps = 17/139 (12%)
Query: 549 MQNSRVIKFGLQELGKMTLFFGCQLKTMDLYSDEKSKMLDQKVLTKSF---LALSREPTI 605
M++ KFG G LF G LY DE + L K +F ALSRE
Sbjct: 180 MEDVPAFKFG----GLAWLFLGVANSDSLLYDDEFERYL--KDYPDNFRYDYALSREQKN 233
Query: 606 P---KTYVQDLMKKEASMLYRELIKEGGHFYVCGDCTMAEHVYQTLKYVFQHEGNLTEQN 662
K YVQD +++ + ++ +L+ G H Y CG M + TLK V + G ++
Sbjct: 234 KKGGKMYVQDKIEEYSDEIF-KLLDNGAHIYFCGLKGMMPGIQDTLKRVAEERG----ES 288
Query: 663 AEKLLLRLRDENRYHEDIF 681
E+ L L+ ++H +++
Sbjct: 289 WEEKLSGLKKNKQWHVEVY 307
>gnl|CDD|99797 cd06200, SiR_like1, 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 = 245
Score = 48.4 bits (116), Expect = 4e-06
Identities = 33/117 (28%), Positives = 44/117 (37%), Gaps = 14/117 (11%)
Query: 567 LFFGCQLKTMD-LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASMLYREL 625
L FG + D +E L + LA SR+ K YVQD ++ A L R
Sbjct: 141 LLFGERQAAHDFFCREELEAWQAAGHLARLDLAFSRDQA-QKRYVQDRLRAAADEL-RAW 198
Query: 626 IKEGGHFYVCGDC-TMAEHVYQTLKYVFQHEGNLTEQNAEKLLLRLRDENRYHEDIF 681
+ EG YVCG MA V L + E + L RY D++
Sbjct: 199 VAEGAAIYVCGSLQGMAPGVDAVLDEILGEEA----------VEALLAAGRYRRDVY 245
>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 = 45.1 bits (107), Expect = 4e-05
Identities = 45/271 (16%), Positives = 88/271 (32%), Gaps = 64/271 (23%)
Query: 423 SQPVARTTLGIQMRKPHDCAYEPGDHVGIFASNKWDLVSGI--LARLNLGGIDPDEPMEL 480
++ V +++ P+ +++PG +V + + +A PDE EL
Sbjct: 3 TEDVTDDVRLFRLQLPNGFSFKPGQYVDLHLPGDGRGLRRAYSIASS------PDEEGEL 56
Query: 481 QVLSETHTSTEVIKSWKPHERLPRASLRTLLSRYLDITTPPPPALLQF---FATFATAPD 537
++ + S +L P ++ F +
Sbjct: 57 ELTV-------------------KIVPGGPFSAWL--HDLKPGDEVEVSGPGGDFFLPLE 95
Query: 538 DQEILTLLATK---------MQNSRVIKFGLQELGKMTLFFGCQLKTMDLYSDEKSKMLD 588
+ + L+A +++ + G++TL +G + L+ DE ++
Sbjct: 96 ESGPVVLIAGGIGITPFRSMLRHL----AADKPGGEITLLYGARTPADLLFLDELEELAK 151
Query: 589 QKVLTKSFLALSREPTIPKTYVQDLMKKEASMLYRELIKEGGHFYVCGDCTMAEHVYQTL 648
+ + LALSRE + + EA +L G Y+CG MA+ V
Sbjct: 152 EGPNFRLVLALSRESEAKLGPGGRIDR-EAEILALLPDDSGALVYICGPPAMAKAV---- 206
Query: 649 KYVFQHEGNLTEQNAEKLLLRLRDENRYHED 679
E L+ E R H +
Sbjct: 207 --------------REALVSLGVPEERIHTE 223
Score = 31.3 bits (71), Expect = 1.5
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 267 LQPRFYSISSSPLAHPNEIHLTVAVV 292
R YSI+SSP E+ LTV +V
Sbjct: 39 GLRRAYSIASSPDE-EGELELTVKIV 63
Score = 31.3 bits (71), Expect = 1.5
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 343 LQPRFYSISSSPLAHPNEIHLTVAVV 368
R YSI+SSP E+ LTV +V
Sbjct: 39 GLRRAYSIASSPDE-EGELELTVKIV 63
>gnl|CDD|215954 pfam00501, AMP-binding, AMP-binding enzyme.
Length = 412
Score = 35.4 bits (82), Expect = 0.086
Identities = 27/115 (23%), Positives = 39/115 (33%), Gaps = 7/115 (6%)
Query: 124 EPGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME--LQVLSETHTSTEVIKSWK 177
PGD V I N + V ILA L G +DP P E +L ++ +I +
Sbjct: 22 GPGDRVAILLPNSPEWVVAILAVLKAGAAYVPLDPSLPAERLAYILEDSEAKV-LITDDE 80
Query: 178 PHERLPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAY 232
+L L+ L+ L I L + + D AY
Sbjct: 81 LLPKLLEVLLKLLVLLALIIVGDDGEGLDLLDDELLAGASAEPPAPPVDPDDLAY 135
Score = 31.5 bits (72), Expect = 1.5
Identities = 24/104 (23%), Positives = 35/104 (33%), Gaps = 7/104 (6%)
Query: 444 EPGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME--LQVLSETHTSTEVIKSWK 497
PGD V I N + V ILA L G +DP P E +L ++ +I +
Sbjct: 22 GPGDRVAILLPNSPEWVVAILAVLKAGAAYVPLDPSLPAERLAYILEDSEAKV-LITDDE 80
Query: 498 PHERLPRASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEI 541
+L L+ L+ L I L +
Sbjct: 81 LLPKLLEVLLKLLVLLALIIVGDDGEGLDLLDDELLAGASAEPP 124
>gnl|CDD|149113 pfam07864, DUF1651, Protein of unknown function (DUF1651). This is
a family containing bacterial proteins of unknown
function.
Length = 75
Score = 31.8 bits (73), Expect = 0.14
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 11/68 (16%)
Query: 563 GKMTLFFGCQLKTMDLYSDEKSKMLDQKVLTKSFLALSR-EPTIPKTYVQDLMKKEASML 621
G F + D+KS D KV + + EP + KT + L++ EA L
Sbjct: 9 GSWLKRF---------HPDKKSWDNDPKVFVDTGRWVPNGEPPLLKTRRR-LLRDEAIEL 58
Query: 622 YRELIKEG 629
++EL+ G
Sbjct: 59 WKELLSNG 66
>gnl|CDD|215823 pfam00258, Flavodoxin_1, Flavodoxin.
Length = 142
Score = 32.7 bits (75), Expect = 0.26
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 1 MLGELGGERLLKLRAGDEMC---GQEQAFRSW 29
L ELG +R+ L GDE E+AF +W
Sbjct: 111 KLAELGAKRVGPLGEGDEDTQEDDLEEAFEAW 142
>gnl|CDD|215585 PLN03115, PLN03115, ferredoxin--NADP(+) reductase; Provisional.
Length = 367
Score = 33.4 bits (76), Expect = 0.41
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 8/76 (10%)
Query: 567 LFFGCQLKTMDLYSDEKSKMLDQKVLTKSF---LALSREPTIP---KTYVQDLMKKEASM 620
LF G + LY +E KM ++ ++F A+SRE T K Y+Q M + A
Sbjct: 253 LFLGVPTSSSLLYKEEFEKMKEKA--PENFRLDFAVSREQTNAKGEKMYIQTRMAEYAEE 310
Query: 621 LYRELIKEGGHFYVCG 636
L+ L K+ + Y+CG
Sbjct: 311 LWELLKKDNTYVYMCG 326
>gnl|CDD|213296 cd05930, A_NRPS, The adenylation domain of nonribosomal peptide
synthetases (NRPS). The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
bond to the enzyme-bound cofactor phosphopantetheine of
a peptidyl carrier protein domain. NRPSs are large
multifunctional enzymes which synthesize many
therapeutically useful peptides in bacteria and fungi
via a template-directed, nucleic acid independent
nonribosomal mechanism. These natural products include
antibiotics, immunosuppressants, plant and animal
toxins, and enzyme inhibitors. NRPS has a distinct
modular structure in which each module is responsible
for the recognition, activation, and in some cases,
modification of a single amino acid residue of the final
peptide product. The modules can be subdivided into
domains that catalyze specific biochemical reactions.
Length = 445
Score = 32.4 bits (75), Expect = 0.77
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 125 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 159
PGD V I ++V ILA L G +DP P E
Sbjct: 36 PGDLVAICLERSPEMVVAILAVLKAGAAYVPLDPAYPAE 74
Score = 32.4 bits (75), Expect = 0.77
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 445 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 479
PGD V I ++V ILA L G +DP P E
Sbjct: 36 PGDLVAICLERSPEMVVAILAVLKAGAAYVPLDPAYPAE 74
>gnl|CDD|112130 pfam03301, Trp_dioxygenase, Tryptophan 2,3-dioxygenase.
Length = 346
Score = 32.3 bits (73), Expect = 0.79
Identities = 31/123 (25%), Positives = 53/123 (43%), Gaps = 13/123 (10%)
Query: 127 DHVGIFASNKWDLVSGILARLNLGGIDPDEPMELQVLSETHTSTEVIKSW---KPHERLP 183
+ G F + +DL++ +LAR G PDE ++ + +E + EV+ SW K H+ L
Sbjct: 194 NFWGKFEKSVYDLLARLLARR--GYPIPDEVLQRDLTAEYEKAPEVLASWLDEKRHDYLL 251
Query: 184 RASLRTLLSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWRFPHL 243
R L R L ++ F+ ++L L D + WR+ H+
Sbjct: 252 SKGERRLSHRALQ-----GALMIYFYRDEPRFSQPYQLLEAL-MDID--SLFTKWRYNHV 303
Query: 244 LEV 246
+ V
Sbjct: 304 VMV 306
>gnl|CDD|206009 pfam13838, Clathrin_H_link, Clathrin-H-link. This short domain is
found on clathrins, and often appears on proteins
directly downstream from the Clathrin-link domain
pfam09268.
Length = 66
Score = 29.1 bits (66), Expect = 1.0
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 181 RLPRASLRTL--LSRYLDITTPP--PPALLQFFAT 211
PR LRT ++R+ + P P LLQ+F
Sbjct: 31 NSPRGILRTPETINRFKQVPAQPGQPSPLLQYFGA 65
Score = 29.1 bits (66), Expect = 1.0
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 501 RLPRASLRTL--LSRYLDITTPP--PPALLQFFAT 531
PR LRT ++R+ + P P LLQ+F
Sbjct: 31 NSPRGILRTPETINRFKQVPAQPGQPSPLLQYFGA 65
>gnl|CDD|213325 cd12117, A_NRPS_Srf_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Bacillus subtilis
termination module Surfactin (SrfA-C). The adenylation
(A) domain of NRPS recognizes a specific amino acid or
hydroxy acid and activates it as an (amino) acyl
adenylate by hydrolysis of ATP. The activated acyl
moiety then forms a thioester to the enzyme-bound
cofactor phosphopantetheine of a peptidyl carrier
protein domain. NRPSs are large multifunctional enzymes
which synthesize many therapeutically useful peptides in
bacteria and fungi via a template-directed, nucleic acid
independent nonribosomal mechanism. These natural
products include antibiotics, immunosuppressants, plant
and animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and, in
some cases, modification of a single amino acid residue
of the final peptide product. The modules can be
subdivided into domains that catalyze specific
biochemical reactions. This family includes the
adenylation domain of the Bacillus subtilis termination
module (Surfactin domain, SrfA-C) which recognizes a
specific amino acid building block, which is then
activated and transferred to the terminal thiol of the
4'-phosphopantetheine (Ppan) arm of the downstream
peptidyl carrier protein (PCP) domain.
Length = 474
Score = 32.1 bits (74), Expect = 1.1
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 124 EPGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 159
PGD V + +LV ILA L G +DP P E
Sbjct: 35 GPGDVVALLLERSPELVVAILAILKAGAAYVPLDPAYPAE 74
Score = 32.1 bits (74), Expect = 1.1
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 444 EPGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 479
PGD V + +LV ILA L G +DP P E
Sbjct: 35 GPGDVVALLLERSPELVVAILAILKAGAAYVPLDPAYPAE 74
>gnl|CDD|233397 TIGR01405, polC_Gram_pos, DNA polymerase III, alpha chain,
Gram-positive type. This model describes a polypeptide
chain of DNA polymerase III. Full-length homologs of
this protein are restricted to the Gram-positive
lineages, including the Mycoplasmas. This protein is
designated alpha chain and given the gene symbol polC,
but is not a full-length homolog of other polC genes.
The N-terminal region of about 200 amino acids is rich
in low-complexity sequence, poorly alignable, and not
included n this model [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1213
Score = 32.4 bits (74), Expect = 1.2
Identities = 22/126 (17%), Positives = 40/126 (31%), Gaps = 21/126 (16%)
Query: 511 LSRYLDITTPPPPALLQFFATFATAPDDQEILTLLATKMQNSRVIKFGLQELGKMTLFFG 570
+++ D PP D + + K ++I+ +EL K + G
Sbjct: 453 IAKRYDFIEIQPPGNYAHLIEREQVKDKEAL------KEIIKKLIELA-KELNKPVVATG 505
Query: 571 CQLKTMDLYSDEKSKMLDQKVL--TKSFLALSREPTIPKTY------VQDLMKKEASMLY 622
D++ E + +K+L ++ PK + M E S L
Sbjct: 506 ------DVHYIEPEDKIYRKILVASQGLGNPLNRHFNPKEVPELHFRTTNEMLDEFSFLG 559
Query: 623 RELIKE 628
E E
Sbjct: 560 EEKAYE 565
>gnl|CDD|213322 cd12114, A_NRPS_TlmIV_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Streptoalloteichus
tallysomycin biosynthesis genes. The adenylation (A)
domain of NRPS recognizes a specific amino acid or
hydroxy acid and activates it as an (amino) acyl
adenylate by hydrolysis of ATP. The activated acyl
moiety then forms a thioester to the enzyme-bound
cofactor phosphopantetheine of a peptidyl carrier
protein domain. NRPSs are large multifunctional enzymes
which synthesize many therapeutically useful peptides in
bacteria and fungi via a template-directed, nucleic acid
independent nonribosomal mechanism. These natural
products include antibiotics, immunosuppressants, plant
and animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and in some
cases, modification of a single amino acid residue of
the final peptide product. The modules can be subdivided
into domains that catalyze specific biochemical
reactions. This family includes the TLM biosynthetic
gene cluster from Streptoalloteichus that consists of
nine NRPS genes; the N-terminal module of TlmVI (NRPS-5)
and the starter module of BlmVI (NRPS-5) are comprised
of the acyl CoA ligase (AL) and acyl carrier protein
(ACP)-like domains, which are thought to be involved in
the biosynthesis of the beta-aminoalaninamide moiety.
Length = 476
Score = 31.8 bits (73), Expect = 1.3
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 125 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 159
PGD V + W+ + +L L G IDPD+P E
Sbjct: 36 PGDLVAVVMPKGWEQIVAVLGILLAGAAYVPIDPDQPAE 74
Score = 31.8 bits (73), Expect = 1.3
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 445 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 479
PGD V + W+ + +L L G IDPD+P E
Sbjct: 36 PGDLVAVVMPKGWEQIVAVLGILLAGAAYVPIDPDQPAE 74
>gnl|CDD|236072 PRK07656, PRK07656, long-chain-fatty-acid--CoA ligase; Validated.
Length = 513
Score = 31.4 bits (72), Expect = 2.0
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 124 EPGDHVGIFASNKWDLVSGILARLNLGGI 152
GD V I+A N V L L G +
Sbjct: 53 GKGDRVAIWAPNSPHWVIAALGALKAGAV 81
Score = 31.4 bits (72), Expect = 2.0
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 444 EPGDHVGIFASNKWDLVSGILARLNLGGI 472
GD V I+A N V L L G +
Sbjct: 53 GKGDRVAIWAPNSPHWVIAALGALKAGAV 81
>gnl|CDD|213530 TIGR00442, hisS, histidyl-tRNA synthetase. This model finds a
histidyl-tRNA synthetase in every completed genome.
Apparent second copies from Bacillus subtilis,
Synechocystis sp., and Aquifex aeolicus are slightly
shorter, more closely related to each other than to
other hisS proteins, and actually serve as regulatory
subunits for an enzyme of histidine biosynthesis. They
were excluded from the seed alignment and score much
lower than do single copy histidyl-tRNA synthetases of
other genomes not included in the seed alignment. These
putative second copies of HisS score below the trusted
cutoff. The regulatory protein kinase GCN2 of
Saccharomyces cerevisiae (YDR283c), and related proteins
from other species designated eIF-2 alpha kinase, have a
domain closely related to histidyl-tRNA synthetase that
may serve to detect and respond to uncharged tRNA(his),
an indicator of amino acid starvation; these regulatory
proteins are not orthologous and so score below the
noise cutoff [Protein synthesis, tRNA aminoacylation].
Length = 397
Score = 30.9 bits (71), Expect = 2.2
Identities = 20/71 (28%), Positives = 27/71 (38%), Gaps = 8/71 (11%)
Query: 2 LGELGGERLLK--LRAGDEMCGQEQAFRSWAPEVFNVACETFCLDDDETLS---DATQVI 56
LGE RL K LR D + Q AP++ + E E L DA +
Sbjct: 186 LGEDSVRRLEKNPLRILDSKNEKIQELLKEAPKILDFLDEE-SRAHFEELKELLDALGI- 243
Query: 57 SSVTLNASTVR 67
++ S VR
Sbjct: 244 -PYVIDPSLVR 253
>gnl|CDD|213285 cd05918, A_NRPS_SidN3_like, The adenylation (A) domain of
siderophore-synthesizing nonribosomal peptide
synthetases (NRPS). The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
to the enzyme-bound cofactor phosphopantetheine of a
peptidyl carrier protein domain. This family of
siderophore-synthesizing NRPS includes the third
adenylation domain of SidN from the endophytic fungus
Neotyphodium lolii, ferrichrome siderophore synthetase,
HC-toxin synthetase, and enniatin synthase. NRPSs are
large multifunctional enzymes which synthesize many
therapeutically useful peptides. These natural products
include antibiotics, immunosuppressants, plant and
animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and in some
cases, modification of a single amino acid residue of
the final peptide product. The modules can be subdivided
into domains that catalyze specific biochemical
reactions.
Length = 447
Score = 31.0 bits (71), Expect = 2.4
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 6/60 (10%)
Query: 125 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME-LQVLSETHTSTEVIKSWKPH 179
PGD V + L ILA L G IDP P+E LQ + E + V+ + P
Sbjct: 41 PGDIVALCLERSPWLYVAILAVLKAGAAYVPIDPSAPVERLQFIIED-SGATVVLTSSPD 99
Score = 31.0 bits (71), Expect = 2.4
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 6/60 (10%)
Query: 445 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME-LQVLSETHTSTEVIKSWKPH 499
PGD V + L ILA L G IDP P+E LQ + E + V+ + P
Sbjct: 41 PGDIVALCLERSPWLYVAILAVLKAGAAYVPIDPSAPVERLQFIIED-SGATVVLTSSPD 99
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains contain
a P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 316
Score = 30.5 bits (69), Expect = 3.2
Identities = 18/86 (20%), Positives = 25/86 (29%), Gaps = 8/86 (9%)
Query: 204 ALLQFFATFATAPDDQEILTLLATDSAAYEDWRHWR-----FPHLLEVLEQFPSIHLPPA 258
ALL+ A +E L A YE+ R LLE L P A
Sbjct: 92 ALLELAALLGRDLTPREETALDRALRALYEEEGIDRDAYPTLSDLLEALRDEPDELREAA 151
Query: 259 LLVAQLTPLQP---RFYSISSSPLAH 281
L+ + + + L
Sbjct: 152 LVDDEEEAAEELALALERLLDGALGG 177
>gnl|CDD|221985 pfam13211, DUF4019, Protein of unknown function (DUF4019). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 130 and 183 amino
acids in length. There is a single completely conserved
residue E that may be functionally important.
Length = 105
Score = 28.8 bits (65), Expect = 3.2
Identities = 19/72 (26%), Positives = 26/72 (36%), Gaps = 12/72 (16%)
Query: 174 KSWKPHERLPRASLRTLLSR------YLDITTPPPP---ALLQFFATFATAPDDQEILTL 224
+ W R RA L ++SR P A++QF TFA E +T
Sbjct: 33 EQWAAQLRGARAPLGAVVSRSLVTRRRYTNLPGAPDGLYAVVQFRTTFANKKQATETVTF 92
Query: 225 LATDSAAYEDWR 236
+ A WR
Sbjct: 93 RLEEDGA---WR 101
>gnl|CDD|233550 TIGR01733, AA-adenyl-dom, amino acid adenylation domain. This
model represents a domain responsible for the specific
recognition of amino acids and activation as adenylyl
amino acids. The reaction catalyzed is aa + ATP ->
aa-AMP + PPi. These domains are usually found as
components of multi-domain non-ribosomal peptide
synthetases and are usually called "A-domains" in that
context (for a review, see ). A-domains are almost
invariably followed by "T-domains" (thiolation domains,
pfam00550) to which the amino acid adenylate is
transferred as a thiol-ester to a bound pantetheine
cofactor with the release of AMP (these are also called
peptide carrier proteins, or PCPs. When the A-domain
does not represent the first module (corresponding to
the first amino acid in the product molecule) it is
usually preceded by a "C-domain" (condensation domain,
pfam00668) which catalyzes the ligation of two amino
acid thiol-esters from neighboring modules. This domain
is a subset of the AMP-binding domain found in Pfam
(pfam00501) which also hits substrate--CoA ligases and
luciferases. Sequences scoring in between trusted and
noise for this model may be ambiguous as to whether they
activate amino acids or other molecules lacking an alpha
amino group.
Length = 409
Score = 29.9 bits (68), Expect = 4.7
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 125 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 159
PGD V + +LV ILA L G +DP P E
Sbjct: 24 PGDRVAVLLERSAELVVAILAVLKAGAAYVPLDPAYPAE 62
Score = 29.9 bits (68), Expect = 4.7
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 445 PGDHVGIFASNKWDLVSGILARLNLGG----IDPDEPME 479
PGD V + +LV ILA L G +DP P E
Sbjct: 24 PGDRVAVLLERSAELVVAILAVLKAGAAYVPLDPAYPAE 62
>gnl|CDD|176512 cd08570, GDPD_YPL206cp_fungi, Glycerophosphodiester
phosphodiesterase domain of Saccharomyces cerevisiae
YPL206cp and similar proteins. This subfamily
corresponds to the glycerophosphodiester
phosphodiesterase domain (GDPD) present in Saccharomyces
cerevisiae YPL206cp and uncharacterized hypothetical
homologs existing in fungi. The product of S. cerevisiae
ORF YPL206c (PGC1), YPL206cp (Pgc1p), displays homology
to bacterial and mammalian glycerophosphodiester
phosphodiesterases (GP-GDE, EC 3.1.4.46), which
catalyzes the degradation of glycerophosphodiesters to
produce sn-glycerol-3-phosphate (G3P) and the
corresponding alcohols. S. cerevisiae YPL206cp is an
integral membrane protein with a single GDPD domain
following by a short hydrophobic C-terminal tail that
may function as a membrane anchor. This protein plays an
essential role in the regulation of the cardiolipin (CL)
biosynthetic pathway in yeast by removing the excess
phosphatidylglycerol (PG) content of membranes via a
phospholipase C-type degradation mechanism. YPL206cp has
been characterized as a PG-specific phospholipase C that
selectively catalyzes the cleavage of PG, not
glycerophosphoinositol (GPI) or glycerophosphocholine
(GPC), to diacylglycerol (DAG) and glycerophosphate.
Members in this family are distantly related to S.
cerevisiae YPL110cp, which selectively hydrolyzes
glycerophosphocholine (GPC), not glycerophosphoinositol
(GPI), to generate choline and glycerolphosphate, and
has been characterized as a cytoplasmic GPC-specific
phosphodiesterase.
Length = 234
Score = 29.5 bits (67), Expect = 5.4
Identities = 23/108 (21%), Positives = 34/108 (31%), Gaps = 36/108 (33%)
Query: 177 KPHERLPR-ASLRTLLSRY--------LDITTPPPPALLQFFATFATAPDDQEILTLLAT 227
+PH+ +P + L + LDI P +L I +LA
Sbjct: 77 EPHQPMPTLKDVLEWLVEHELPDVKLMLDIKRDNDPEILFK-----------LIAEMLA- 124
Query: 228 DSAAYEDWRHWR------------FPHLLEVLEQFPSIHLPPALLVAQ 263
D WR + EVL FP H+ +L A+
Sbjct: 125 ---VKPDLDFWRERIILGLWHLDFLKYGKEVLPGFPVFHIGFSLDYAR 169
>gnl|CDD|213275 cd05907, VL_LC_FACS_like, Long-chain fatty acid CoA synthetases and
Bubblegum-like very long-chain fatty acid CoA
synthetases. This family includes long-chain fatty acid
(C12-C20) CoA synthetases and Bubblegum-like very
long-chain (>C20) fatty acid CoA synthetases. FACS
catalyzes the formation of fatty acyl-CoA in a two-step
reaction: the formation of a fatty acyl-AMP molecule as
an intermediate, and the formation of a fatty acyl-CoA.
Eukaryotes generally have multiple isoforms of LC-FACS
genes with multiple splice variants. For example, nine
genes are found in Arabidopsis and six genes are
expressed in mammalian cells. Drosophila melanogaster
mutant bubblegum (BGM) have elevated levels of
very-long-chain fatty acids (VLCFA) caused by a
defective gene later named bubblegum. The human homolog
(hsBG) of bubblegum has been characterized as a very
long chain fatty acid CoA synthetase that functions
specifically in the brain; hsBG may play a central role
in brain VLCFA metabolism and myelinogenesis. Free fatty
acids must be "activated" to their CoA thioesters before
participating in most catabolic and anabolic reactions.
Length = 456
Score = 29.8 bits (68), Expect = 5.7
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 119 HDCAYEPGDHVGIFASNKWDLVSGILARLNLGGID 153
+PGD V I A N+ + V LA L G +
Sbjct: 23 IALGVKPGDRVAILAENRPEWVIADLAILAAGAVP 57
Score = 29.8 bits (68), Expect = 5.7
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 439 HDCAYEPGDHVGIFASNKWDLVSGILARLNLGGID 473
+PGD V I A N+ + V LA L G +
Sbjct: 23 IALGVKPGDRVAILAENRPEWVIADLAILAAGAVP 57
>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 = 29.1 bits (66), Expect = 6.9
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 8/72 (11%)
Query: 578 LYSDEKSKMLDQKVLTKSFLALSREPTIPKTYVQDLMKKEASMLYRELIKEGGHFYVCGD 637
+ DE KML K + ++ E + + + + L + + HFYVCG
Sbjct: 143 ILKDELEKMLGLKFI----NVVTDEKDPGYAHGR----IDKAFLKQHVTDFNQHFYVCGP 194
Query: 638 CTMAEHVYQTLK 649
M E + LK
Sbjct: 195 PPMEEAINGALK 206
>gnl|CDD|199866 cd06244, M14-like_1_7, Peptidase M14-like domain; uncharacterized
subgroup. Peptidase M14-like domain of a functionally
uncharacterized subgroup of the M14 family of
metallocarboxypeptidases (MCPs). The M14 family are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. Two major subfamilies of the M14 family,
defined based on sequence and structural homology, are
the A/B and N/E subfamilies. Enzymes belonging to the
A/B subfamily are normally synthesized as inactive
precursors containing preceding signal peptide, followed
by an N-terminal pro-region linked to the enzyme; these
proenzymes are called procarboxypeptidases. The A/B
enzymes can be further divided based on their substrate
specificity; Carboxypeptidase A-like (CPA-like) enzymes
favor hydrophobic residues while carboxypeptidase B-like
(CPB-like) enzymes only cleave the basic residues lysine
or arginine. The A forms have slightly different
specificities, with Carboxypeptidase A1 (CPA1)
preferring aliphatic and small aromatic residues, and
CPA2 preferring the bulky aromatic side chains. Enzymes
belonging to the N/E subfamily enzymes are not produced
as inactive precursors and instead rely on their
substrate specificity and subcellular
compartmentalization to prevent inappropriate cleavages.
They contain an extra C-terminal transthyretin-like
domain, thought to be involved in folding or formation
of oligomers. MCPs can also be classified based on
their involvement in specific physiological processes;
the pancreatic MCPs participate only in alimentary
digestion and include carboxypeptidase A and B (A/B
subfamily), while others, namely regulatory MCPs or the
N/E subfamily, are involved in more selective reactions,
mainly in non-digestive tissues and fluids, acting on
blood coagulation/fibrinolysis, inflammation and local
anaphylaxis, pro-hormone and neuropeptide processing,
cellular response and others. Another MCP subfamily,
is that of succinylglutamate desuccinylase
/aspartoacylase, which hydrolyzes N-acetyl-L-aspartate
(NAA), and deficiency in which is the established cause
of Canavan disease. Another subfamily (referred to as
subfamily C) includes an exceptional type of activity in
the MCP family, that of dipeptidyl-peptidase activity of
gamma-glutamyl-(L)-meso-diaminopimelate peptidase I
which is involved in bacterial cell wall metabolism.
Length = 268
Score = 29.1 bits (65), Expect = 7.3
Identities = 11/35 (31%), Positives = 13/35 (37%)
Query: 144 LARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKP 178
L R N G D + Q ET +I W P
Sbjct: 126 LTRENSNGFDLNRDNSFQTQPETQNMVALIAEWNP 160
Score = 29.1 bits (65), Expect = 7.3
Identities = 11/35 (31%), Positives = 13/35 (37%)
Query: 464 LARLNLGGIDPDEPMELQVLSETHTSTEVIKSWKP 498
L R N G D + Q ET +I W P
Sbjct: 126 LTRENSNGFDLNRDNSFQTQPETQNMVALIAEWNP 160
>gnl|CDD|163660 cd07417, MPP_PP5_C, PP5, C-terminal metallophosphatase domain.
Serine/threonine protein phosphatase-5 (PP5) is a member
of the PPP gene family of protein phosphatases that is
highly conserved among eukaryotes and widely expressed
in mammalian tissues. PP5 has a C-terminal phosphatase
domain and an extended N-terminal TPR (tetratricopeptide
repeat) domain containing three TPR motifs. The PPP
(phosphoprotein phosphatase) family, to which PP5
belongs, is one of two known protein phosphatase
families specific for serine and threonine. The PPP
family also includes: PP1, PP2A, PP2B (calcineurin),
PP4, PP6, PP7, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4
hydrolase. The PPP catalytic domain is defined by three
conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The
PPP enzyme family is ancient with members found in all
eukaryotes, and in most bacterial and archeal genomes.
Dephosphorylation of phosphoserines and
phosphothreonines on target proteins plays a central
role in the regulation of many cellular processes. PPPs
belong to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 316
Score = 29.1 bits (66), Expect = 7.4
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 10/42 (23%)
Query: 604 TIPKTYV-------QDLMKKEASMLYREL-IKEGGHFYVCGD 637
+ K Y ++L+KK S++ E+ I EG VCGD
Sbjct: 28 KLHKKYAYQILLQVKELLKKLPSLV--EITIPEGEKITVCGD 67
>gnl|CDD|234095 TIGR03030, CelA, cellulose synthase catalytic subunit
(UDP-forming). Cellulose synthase catalyzes the
beta-1,4 polymerization of glucose residues in the
formation of cellulose. In bacteria, the substrate is
UDP-glucose. The synthase consists of two subunits (or
domains in the frequent cases where it is encoded as a
single polypeptide), the catalytic domain modelled here
and the regulatory domain (pfam03170). The regulatory
domain binds the allosteric activator cyclic di-GMP. The
protein is membrane-associated and probably assembles
into multimers such that the individual cellulose
strands can self-assemble into multi-strand fibrils.
Length = 713
Score = 29.2 bits (66), Expect = 8.8
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 238 WRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRF 271
R+P EV E +++L P +LV L P +P+F
Sbjct: 460 VRWPFWSEVYETVLAVYLLPPVLVTLLNPKKPKF 493
Score = 29.2 bits (66), Expect = 8.8
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 314 WRFPHLLEVLEQFPSIHLPPALLVAQLTPLQPRF 347
R+P EV E +++L P +LV L P +P+F
Sbjct: 460 VRWPFWSEVYETVLAVYLLPPVLVTLLNPKKPKF 493
>gnl|CDD|237267 PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1;
Provisional.
Length = 896
Score = 29.1 bits (66), Expect = 8.9
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 179 HERLPRASLRTLL-SRYLDITTPPPPALLQFFATFATAPDDQEILTLLA 226
H R RA+L L R P P L F A FA +E+ T +A
Sbjct: 463 HAR--RAALGGYLPRRRTAAPPLPVPPLSAF-AQFALGAGGKEMSTTMA 508
Score = 29.1 bits (66), Expect = 8.9
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 499 HERLPRASLRTLL-SRYLDITTPPPPALLQFFATFATAPDDQEILTLLA 546
H R RA+L L R P P L F A FA +E+ T +A
Sbjct: 463 HAR--RAALGGYLPRRRTAAPPLPVPPLSAF-AQFALGAGGKEMSTTMA 508
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 0.134 0.408
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 35,996,528
Number of extensions: 3496288
Number of successful extensions: 3223
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3155
Number of HSP's successfully gapped: 106
Length of query: 707
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 603
Effective length of database: 6,324,786
Effective search space: 3813845958
Effective search space used: 3813845958
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 (21.8 bits)
S2: 63 (27.9 bits)