RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780808|ref|YP_003065221.1| tRNA uridine
5-carboxymethylaminomethyl modification enzyme GidA [Candidatus
Liberibacter asiaticus str. psy62]
(626 letters)
>gnl|CDD|179960 PRK05192, PRK05192, tRNA uridine 5-carboxymethylaminomethyl
modification enzyme GidA; Validated.
Length = 618
Score = 1034 bits (2676), Expect = 0.0
Identities = 330/619 (53%), Positives = 422/619 (68%), Gaps = 7/619 (1%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVREI 62
YDVIV+GGGHAGCEAA AA++GA T L+TH TIG MSCNPAIGG+ KGHLVREI
Sbjct: 2 PEEYDVIVVGGGHAGCEAALAAARMGAKTLLLTHNLDTIGQMSCNPAIGGIAKGHLVREI 61
Query: 63 DALDGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRLAMQREILSQENLDVIQG 122
DAL G MG+ D GIQFR+LN KGPAVR R QADR+LYR AM+ + +Q NLD+ QG
Sbjct: 62 DALGGEMGKAIDKTGIQFRMLNTSKGPAVRALRAQADRKLYRAAMREILENQPNLDLFQG 121
Query: 123 EVAGFNTEKNIISSIVMQDNSMIRCSTVVLTTGTFLRGVIHIGKLKIPAGRMGDSPSNSL 182
EV E + +V QD R VVLTTGTFLRG IHIG+ GR G+ PS L
Sbjct: 122 EVEDLIVENGRVVGVVTQDGLEFRAKAVVLTTGTFLRGKIHIGEKNYSGGRAGEPPSIGL 181
Query: 183 FNSFMKFDFDTGRLKTGTPARLDGKTIIWDKTEKQFADERLIPFSFMTDKITNRQIECGI 242
S + F+ GRLKTGTP R+DG++I + K E+Q D+ PFSFMT+KI Q+ C I
Sbjct: 182 SESLRELGFELGRLKTGTPPRIDGRSIDFSKLEEQPGDDPPPPFSFMTEKIHPPQVPCYI 241
Query: 243 TRTNLETHRIIMENIKHSAIYSGDIKSYGPRYCPSIEDKIVRFGERNGHQIFLEPEGLNT 302
T TN ETH II EN+ S +YSG I+ GPRYCPSIEDKIVRF +++ HQIFLEPEGL+T
Sbjct: 242 TYTNEETHEIIRENLHRSPMYSGVIEGVGPRYCPSIEDKIVRFADKDRHQIFLEPEGLDT 301
Query: 303 DVVYPNGISTALPEEIQHQFIRTIPGLEKVNIIRPGYAIEYDYINPKELFPTLETKKISG 362
+ VYPNGIST+LPE++Q + +R+IPGLE I+RPGYAIEYDY++P++L PTLETKKI G
Sbjct: 302 NEVYPNGISTSLPEDVQLEMLRSIPGLENAEILRPGYAIEYDYVDPRQLKPTLETKKIKG 361
Query: 363 LFLAGQINGTTGYEEAAAQGLVAGINSARKSNKLDCICFSRTDSYIGVMIDDLTSKGVLE 422
LF AGQINGTTGYEEAAAQGL+AGIN+A K + + R+++YIGV+IDDL +KG E
Sbjct: 362 LFFAGQINGTTGYEEAAAQGLIAGINAALKV-QGEPFILKRSEAYIGVLIDDLVTKGTKE 420
Query: 423 PYRMFTSRAEYRISLRPDNADNRLTPIGMKLGCIGERRQKRFAKYIQEYNFLRSLLKSLV 482
PYRMFTSRAEYR+ LR DNAD RLT G +LG + + R RF + + LKS
Sbjct: 421 PYRMFTSRAEYRLLLREDNADLRLTEKGYELGLVDDERWARFEEKKEAIEEEIERLKSTR 480
Query: 483 LTSKNLSSTSISFKQDGKTR--TAYEFLSYPDFSIQNLFSICPDARKFSSLVIERLQIES 540
+T L+ D R + + L P+ + ++L + P+ V E+++IE
Sbjct: 481 VTPDELN----ELGGDPLKREVSLLDLLRRPEITYEDLAKLDPELADLDPEVAEQVEIEI 536
Query: 541 SYAAYTGRQMIEAKEIKFEEKRLIPKDFDYSSLPALSNELKEKLSILKPFNLLQASKIEG 600
Y Y RQ E +++K E + IP+D DY ++ LSNE +EKL+ ++P + QAS+I G
Sbjct: 537 KYEGYIERQQEEIEKLKRLENKKIPEDIDYDAISGLSNEAREKLNKIRPETIGQASRISG 596
Query: 601 MTPAALNLLLIYIKKNTVK 619
+TPA +++LL+Y+KK
Sbjct: 597 VTPADISILLVYLKKRGRL 615
>gnl|CDD|129242 TIGR00136, gidA, glucose-inhibited division protein A. GidA, the
longer of two forms of GidA-related proteins, appears to
be present in all complete eubacterial genomes so far,
as well as Saccharomyces cerevisiae. A subset of these
organisms have a closely related protein. GidA is absent
in the Archaea. It appears to act with MnmE, in an
alpha2/beta2 heterotetramer, in the
5-carboxymethylaminomethyl modification of uridine 34 in
certain tRNAs. The shorter, related protein, previously
called gid or gidA(S), is now called TrmFO (see model
TIGR00137).
Length = 617
Score = 781 bits (2019), Expect = 0.0
Identities = 316/617 (51%), Positives = 405/617 (65%), Gaps = 9/617 (1%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVREIDAL 65
+DVIVIGGGHAGCEAA AA++GA T L+T TIG SCNPAIGG KG LV+EIDAL
Sbjct: 1 FDVIVIGGGHAGCEAALAAARMGAKTLLLTLNLDTIGKCSCNPAIGGPAKGILVKEIDAL 60
Query: 66 DGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRLAMQREILSQENLDVIQGEVA 125
GLMG+ AD AG+QFRVLN KGPAVR R Q D+ LYR AM+ + +Q NL + QGEV
Sbjct: 61 GGLMGKAADKAGLQFRVLNSSKGPAVRATRAQIDKVLYRKAMRNALENQPNLSLFQGEVE 120
Query: 126 GFNTEKN-IISSIVMQDNSMIRCSTVVLTTGTFLRGVIHIGKLKIPAGRMGDSPSNSLFN 184
E N I +V QD R V++TTGTFLRG IHIG AGR G+ PS L
Sbjct: 121 DLILEDNDEIKGVVTQDGLKFRAKAVIITTGTFLRGKIHIGDKSYSAGRAGEQPSIGLST 180
Query: 185 SFMKFDFDTGRLKTGTPARLDGKTIIWDKTEKQFADERLIPFSFMTDK-ITNRQIECGIT 243
+ + F GRLKTGTP R+D ++I + K E Q D FSFM + +Q+ C +T
Sbjct: 181 TLRELGFKVGRLKTGTPPRIDKRSIDFSKLEVQHGDNPPPAFSFMNKNFLPLQQLPCYLT 240
Query: 244 RTNLETHRIIMENIKHSAIYSGDIKSYGPRYCPSIEDKIVRFGERNGHQIFLEPEGLNTD 303
TN +TH +I N+ S +YSG I+ GPRYCPSIEDK+VRF ++ HQIFLEPEGLN+D
Sbjct: 241 HTNPKTHDLIRSNLHRSPMYSGVIEGNGPRYCPSIEDKVVRFADKERHQIFLEPEGLNSD 300
Query: 304 VVYPNGISTALPEEIQHQFIRTIPGLEKVNIIRPGYAIEYDYINPKELFPTLETKKISGL 363
+YPNG+ST+LPE++Q Q +R+IPGLE I+RPGYAIEYD+ +P++L PTLETK I GL
Sbjct: 301 EIYPNGLSTSLPEDVQLQIVRSIPGLENAEILRPGYAIEYDFFDPRQLKPTLETKLIQGL 360
Query: 364 FLAGQINGTTGYEEAAAQGLVAGINSARKSNKLDCICFSRTDSYIGVMIDDLTSKGVLEP 423
F AGQINGTTGYEEAAAQGL+AGIN+A K + R+++YIGV+IDDL +KG EP
Sbjct: 361 FFAGQINGTTGYEEAAAQGLMAGINAALKLQNKEPFILKRSEAYIGVLIDDLVTKGTKEP 420
Query: 424 YRMFTSRAEYRISLRPDNADNRLTPIGMKLGCIGERRQKRFAKYIQEYNFLRSLLKSLVL 483
YRMFTSRAEYR+ LR DNAD RLT IG +LG I + R RF K + LKS L
Sbjct: 421 YRMFTSRAEYRLLLREDNADFRLTEIGRELGLIDDERYARFLKKKENIEEEIQRLKSTWL 480
Query: 484 TS-----KNLSSTSISFKQDGKTRTAYEFLSYPDFSIQNLFSICPDARKFSSLVIERLQI 538
T + L + S + + + L P+ +++ L + P V+E+++I
Sbjct: 481 TPSKEVKEELKNHLQSPLKRE--ASGEDLLRRPEMNLEKLTKLTPFLPALDEEVLEQVEI 538
Query: 539 ESSYAAYTGRQMIEAKEIKFEEKRLIPKDFDYSSLPALSNELKEKLSILKPFNLLQASKI 598
+ Y Y +Q E K++ E IP FDY +P LS E +EKLS +P ++ QAS+I
Sbjct: 539 QIKYEGYIKKQQDEIKKLDRLENVKIPATFDYRKVPGLSTEAREKLSKFRPLSIGQASRI 598
Query: 599 EGMTPAALNLLLIYIKK 615
G+TPA +++LL+Y+KK
Sbjct: 599 SGITPADISILLVYLKK 615
>gnl|CDD|180023 PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid;
Reviewed.
Length = 436
Score = 83.7 bits (208), Expect = 1e-16
Identities = 42/101 (41%), Positives = 58/101 (57%), Gaps = 2/101 (1%)
Query: 319 QHQFIRTIPGLEKVNIIRPGYAIEYDYIN-PKELFPTLETKKISGLFLAGQINGTTGYEE 377
Q + R IPGLE +R G +IN PK L PTL+ KK LF AGQI G GY E
Sbjct: 288 QKRVFRMIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAGQITGVEGYVE 347
Query: 378 AAAQGLVAGINSARKSNKLDCICFSRTDSYIGVMIDDLTSK 418
+AA GL+AGIN+AR + + + T + +G +++ +T
Sbjct: 348 SAASGLLAGINAARLALGKEPVIPPPT-TALGALLNYITGA 387
Score = 51.7 bits (125), Expect = 6e-07
Identities = 39/147 (26%), Positives = 53/147 (36%), Gaps = 35/147 (23%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI---------THKTSTIGSMSCNPAIGGL----G 54
V VIG G AG EAA AK G L H T + C+ +
Sbjct: 5 VNVIGAGLAGSEAAWQLAKRGVPVELYEMRPVKKTPAHHTDGFAELVCSNSFRSDSLTNA 64
Query: 55 KGHLVREIDALDGLMGRVADAAGIQFRVLNVKKGPA-----VRGPRTQADRELYRLAMQR 109
G L E+ L L+ ADA RV PA V DRE + +
Sbjct: 65 VGLLKEEMRRLGSLIMEAADAH----RV------PAGGALAV-------DREGFSEYVTE 107
Query: 110 EILSQENLDVIQGEVAGFNTEKNIISS 136
+ + + VI+ EV + II++
Sbjct: 108 ALENHPLITVIREEVTEIPEDITIIAT 134
>gnl|CDD|129243 TIGR00137, gid_trmFO, tRNA:m(5)U-54 methyltransferase. This model
represents an orthologous set of proteins present in
relatively few bacteria but very tightly conserved where
it occurs. It is closely related to gidA
(glucose-inhibited division protein A), which appears to
be present in all complete eubacterial genomes so far
and in Saccharomyces cerevisiae. It was designated gid
but is now recognized as a tRNA:m(5)U-54
methyltransferase and is now designated trmFO.
Length = 433
Score = 74.6 bits (183), Expect = 7e-14
Identities = 35/111 (31%), Positives = 54/111 (48%), Gaps = 2/111 (1%)
Query: 309 GISTALPEEIQHQFIRTIPGLEKVNIIRPGYAIEYDYIN-PKELFPTLETKKISGLFLAG 367
G T L Q + R IPGLE +R G +IN P+ L +L K LF AG
Sbjct: 277 GFQTNLRWGEQKRVFRLIPGLENAEFVRMGVMHRNTFINSPQLLTASLHFKDRQTLFFAG 336
Query: 368 QINGTTGYEEAAAQGLVAGINSARKSNKLDCICFSRTDSYIGVMIDDLTSK 418
Q+ G GY + A G +AGIN+AR + + ++ +G + + +++
Sbjct: 337 QLTGVEGYVASTAGGWLAGINAARLALGEPLLTLP-AETMMGALFNYISTA 386
Score = 46.4 bits (110), Expect = 2e-05
Identities = 35/130 (26%), Positives = 53/130 (40%), Gaps = 25/130 (19%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI---------THKTSTIGSMSCNPAIGGL----G 54
V VIGGG AG EAA A+ G L H T + + C+ ++G
Sbjct: 3 VHVIGGGLAGSEAAWQLAQAGVPVILYEMRPEKLTPAHHTEDLAELVCSNSLGAKALDRA 62
Query: 55 KGHLVREIDALDGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRLAMQREILSQ 114
G L E+ L L+ AD + PA G DR ++ ++ ++ S
Sbjct: 63 AGLLKTEMRQLSSLIITAADRHAV----------PA--GGALAVDRGIFSRSLTEQVASH 110
Query: 115 ENLDVIQGEV 124
N+ +I+ EV
Sbjct: 111 PNVTLIREEV 120
>gnl|CDD|180019 PRK05329, PRK05329, anaerobic glycerol-3-phosphate dehydrogenase
subunit B; Validated.
Length = 422
Score = 49.9 bits (120), Expect = 2e-06
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTI----GSM 44
+DV+VIGGG AG AA AA+ G AL+ + GS+
Sbjct: 3 FDVLVIGGGLAGLTAALAAAEAGKRVALVAKGQGALHFSSGSI 45
>gnl|CDD|180546 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 45.2 bits (108), Expect = 6e-05
Identities = 18/34 (52%), Positives = 19/34 (55%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
+ YD IVIG G AG AA AA LG ALI
Sbjct: 1 TPAQRYDAIVIGAGQAGPPLAARAAGLGMKVALI 34
Score = 29.0 bits (66), Expect = 3.6
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 9 IVIGGGHAGCEAAAVAAKLGASTALI 34
++IGGG+ G E A + + G+ +I
Sbjct: 175 VIIGGGYIGLEFAQMFRRFGSEVTVI 200
>gnl|CDD|149204 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 277
Score = 45.0 bits (107), Expect = 6e-05
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV++IGGG AG AA A+LG ALI
Sbjct: 1 DVVIIGGGPAGLAAAIYLARLGLKVALI 28
Score = 35.0 bits (81), Expect = 0.051
Identities = 14/27 (51%), Positives = 19/27 (70%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
V+V+GGG+ G E AA AKLGA ++
Sbjct: 139 VVVVGGGYIGLELAAALAKLGAEVTVV 165
>gnl|CDD|162668 TIGR02032, GG-red-SF, geranylgeranyl reductase family. This
model represents a subfamily which includes
geranylgeranyl reductases involved in chlorophyll and
bacteriochlorophyll biosynthesis as well as other
related enzymes which may also act on geranylgeranyl
groups or related substrates.
Length = 295
Score = 44.6 bits (106), Expect = 8e-05
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGG 52
YDV+V+G G AG AA A G L+ K S C A+
Sbjct: 1 YDVVVVGAGPAGASAAYRLADKGLRVLLL-EKKSFPRYKPCGGALSP 46
>gnl|CDD|163151 TIGR03140, AhpF, alkyl hydroperoxide reductase, F subunit. This
enzyme is the partner of the peroxiredoxin (alkyl
hydroperoxide reductase) AhpC which contains the
peroxide-reactive cysteine. AhpF contains the reductant
(NAD(P)H) binding domain (pfam00070) and presumably acts
to resolve the disulfide which forms after oxidation of
the active site cysteine in AphC. This proteins contains
two paired conserved cysteine motifs, CxxCP and CxHCDGP.
Length = 515
Score = 43.9 bits (104), Expect = 1e-04
Identities = 39/166 (23%), Positives = 68/166 (40%), Gaps = 50/166 (30%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVREIDAL 65
YDV+V+GGG AG AA AA+ G TA++ + IG
Sbjct: 213 YDVLVVGGGPAGAAAAIYAARKGLRTAMVAER---IG----------------------- 246
Query: 66 DGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRLAMQ-REILSQENLDVIQGEV 124
G+V D GI+ N+ P G +LA E + Q +D+++ +
Sbjct: 247 ----GQVKDTVGIE----NLISVPYTTGS---------QLAANLEEHIKQYPIDLMENQR 289
Query: 125 AGFNTEKNIISSIVMQDNSMIRCSTVVLTTGTFLRGVIHIGKLKIP 170
A ++ + + ++ +++ +V++ TG R KL +P
Sbjct: 290 AKKIETEDGLIVVTLESGEVLKAKSVIVATGARWR------KLGVP 329
>gnl|CDD|162675 TIGR02053, MerA, mercuric reductase. This model represents the
mercuric reductase found in the mer operon for the
detoxification of mercury compounds. MerA is a
FAD-containing flavoprotein which reduces Hg(II) to
Hg(0) utilizing NADPH.
Length = 463
Score = 44.0 bits (104), Expect = 1e-04
Identities = 31/118 (26%), Positives = 50/118 (42%), Gaps = 9/118 (7%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVREIDAL 65
YD+++IG G A AA AA+LGAS A++ +G N +G + L+R A
Sbjct: 1 YDLVIIGSGAAAFAAAIKAAELGASVAMVER--GPLGGTCVN--VGCVPSKMLLR---AA 53
Query: 66 DGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRLAMQREILSQENLDVIQGE 123
+ G + V G + G R + R ++LS +D ++G
Sbjct: 54 EVAHYARKPPFGGLAATVAVDFGELLEGKREVVEEL--RHEKYEDVLSSYGVDYLRGR 109
Score = 29.3 bits (66), Expect = 3.0
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
+ VIGGG G E A A+LG+ ++
Sbjct: 169 LAVIGGGAIGVELAQAFARLGSEVTIL 195
>gnl|CDD|162312 TIGR01350, lipoamide_DH, dihydrolipoamide dehydrogenase. The
motif GGXCXXXGCXP near the N-terminus contains a
redox-active disulfide.
Length = 461
Score = 43.4 bits (103), Expect = 2e-04
Identities = 17/30 (56%), Positives = 21/30 (70%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
+YDV+VIGGG G AA AA+LG AL+
Sbjct: 1 AYDVVVIGGGPGGYVAAIRAAQLGLKVALV 30
Score = 28.0 bits (63), Expect = 7.8
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 9 IVIGGGHAGCEAAAVAAKLGA 29
++IGGG G E A++ A LG+
Sbjct: 174 VIIGGGVIGIEFASIFASLGS 194
>gnl|CDD|179973 PRK05249, PRK05249, soluble pyridine nucleotide transhydrogenase;
Provisional.
Length = 461
Score = 42.8 bits (102), Expect = 3e-04
Identities = 25/54 (46%), Positives = 29/54 (53%), Gaps = 13/54 (24%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAV-AAKLGASTALI----------THKTSTIGS 43
M YD++VIG G AG E AA+ AAKLG A+I TH T TI S
Sbjct: 1 MHMYDYDLVVIGSGPAG-EGAAMQAAKLGKRVAVIERYRNVGGGCTH-TGTIPS 52
>gnl|CDD|180579 PRK06467, PRK06467, dihydrolipoamide dehydrogenase; Reviewed.
Length = 471
Score = 42.6 bits (101), Expect = 3e-04
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
V+V+G G AG AA AA LG T + + ST+G
Sbjct: 4 KTQVVVLGAGPAGYSAAFRAADLGLETVCV-ERYSTLG 40
>gnl|CDD|180516 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 42.1 bits (100), Expect = 4e-04
Identities = 42/159 (26%), Positives = 62/159 (38%), Gaps = 26/159 (16%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALI---THKTS--TIGSMSCNPAIGGLGKGHL 58
YDVIVIG G AG AA AAKLG ALI + +G C P+ +
Sbjct: 2 EKYDVIVIGAGPAGYVAARRAAKLGKKVALIEKGPLGGTCLNVG---CIPSKALIAAAEA 58
Query: 59 VREIDALDGLMGRVADAAGIQFR-VLNVKKGPAVRGPRTQADRELYRLAMQREILSQENL 117
E + G AD I F+ V+ R + +R+ + + + + +
Sbjct: 59 FHEAKHAEE-FGIHADGPKIDFKKVMA----------RVRRERDRFVGGVVEGLEKKPKI 107
Query: 118 DVIQGEVAGFNTEKNIISSIVMQDNSMIRCSTVVLTTGT 156
D I+G A F V + I +V+ TG+
Sbjct: 108 DKIKG-TARFVDPN-----TVEVNGERIEAKNIVIATGS 140
>gnl|CDD|162542 TIGR01812, sdhA_frdA_Gneg, succinate dehydrogenase or fumarate
reductase, flavoprotein
subunitGram-negative/mitochondrial subgroup. This
model represents the succinate dehydrogenase
flavoprotein subunit as found in Gram-negative
bacteria, mitochondria, and some Archaea. Mitochondrial
forms interact with ubiquinone and are designated EC
1.3.5.1, but can be degraded to 1.3.99.1. Some isozymes
in E. coli and other species run primarily in the
opposite direction and are designated fumarate
reductase.
Length = 566
Score = 41.9 bits (99), Expect = 5e-04
Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGG 52
DV+++G G AG AA AAK G +TA+I+ K S + A GG
Sbjct: 1 DVVIVGAGLAGLRAAVEAAKAGLNTAVIS-KVYPTRSHTV-AAQGG 44
>gnl|CDD|130488 TIGR01421, gluta_reduc_1, glutathione-disulfide reductase,
animal/bacterial. The tripeptide glutathione is an
important reductant, e.g., for maintaining the cellular
thiol/disulfide status and for protecting against
reactive oxygen species such as hydrogen peroxide.
Glutathione-disulfide reductase regenerates reduced
glutathione from oxidized glutathione (glutathione
disulfide) + NADPH. This model represents one of two
closely related subfamilies of glutathione-disulfide
reductase. Both are closely related to trypanothione
reductase, and separate models are built so each of the
three can describe proteins with conserved function.
This model describes glutathione-disulfide reductases of
animals, yeast, and a number of animal-resident
bacteria.
Length = 450
Score = 41.7 bits (98), Expect = 6e-04
Identities = 37/131 (28%), Positives = 59/131 (45%), Gaps = 11/131 (8%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVREID 63
+ YD +VIGGG G +A AA+ GA L+ K +G N +G + K + D
Sbjct: 1 KHYDYLVIGGGSGGIASARRAAEHGAKALLVEAK--KLGGTCVN--VGCVPKKVMWYASD 56
Query: 64 ALDGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRL-AMQREILSQENLDVIQG 122
L R+ DAA F N++ + + D + RL + ++ L + +DVI G
Sbjct: 57 ----LAERMHDAADYGFYQ-NLENTFNWPELKEKRDAYVDRLNGIYQKNLEKNKVDVIFG 111
Query: 123 EVAGFNTEKNI 133
A F + +
Sbjct: 112 H-ARFTKDGTV 121
>gnl|CDD|180529 PRK06327, PRK06327, dihydrolipoamide dehydrogenase; Validated.
Length = 475
Score = 41.4 bits (98), Expect = 7e-04
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
++ +DV+VIG G G AA AA+LG A I
Sbjct: 2 SKQFDVVVIGAGPGGYVAAIRAAQLGLKVACI 33
>gnl|CDD|181001 PRK07494, PRK07494, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Provisional.
Length = 388
Score = 41.0 bits (97), Expect = 8e-04
Identities = 40/173 (23%), Positives = 68/173 (39%), Gaps = 37/173 (21%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTS-----TIGSMSCNPAIGGLGK 55
M D+ VIGGG AG AA A+ GAS AL+ + T + P+I
Sbjct: 3 MEKEHTDIAVIGGGPAGLAAAIALARAGASVALVAPEPPYADLRTTALL--GPSI----- 55
Query: 56 GHLVREIDALDGLMGRVAD-AAGIQF-RVLNVKKGPAVRGPRTQ---------------A 98
R ++ L GL R+A AA +Q R+++ G +R P +
Sbjct: 56 ----RFLERL-GLWARLAPHAAPLQSMRIVDA-TGRLIRAPEVRFRAAEIGEDAFGYNIP 109
Query: 99 DRELYRLAMQREILSQENLDVIQGEVAGFNTEKNIISSIVMQDNSMIRCSTVV 151
+ L A++ + N+ E ++ + ++ + D + + VV
Sbjct: 110 NWLL-NRALEARVAELPNITRFGDEAESVRPREDEV-TVTLADGTTLSARLVV 160
>gnl|CDD|181141 PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed.
Length = 466
Score = 41.0 bits (97), Expect = 9e-04
Identities = 15/27 (55%), Positives = 20/27 (74%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
+++IGGG G EAA VAA+LGA +I
Sbjct: 4 IVIIGGGPGGYEAALVAAQLGADVTVI 30
>gnl|CDD|180558 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 40.9 bits (97), Expect = 0.001
Identities = 16/31 (51%), Positives = 19/31 (61%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YDVIVIG G G AA AA+LG A++
Sbjct: 3 FEYDVIVIGAGPGGYVAAIRAAQLGLKVAIV 33
Score = 29.3 bits (67), Expect = 3.0
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
++VIGGG+ G E A+ A LGA ++
Sbjct: 175 LVVIGGGYIGVEFASAYASLGAEVTIV 201
>gnl|CDD|181124 PRK07803, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 626
Score = 40.4 bits (95), Expect = 0.002
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
SYDV+VIG G AG AA A + G A++
Sbjct: 7 HSYDVVVIGAGGAGLRAAIEARERGLRVAVVC 38
>gnl|CDD|183786 PRK12843, PRK12843, putative FAD-binding dehydrogenase; Reviewed.
Length = 578
Score = 39.3 bits (92), Expect = 0.003
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
+ +DVIVIG G AG AA AA G L+ +T +G
Sbjct: 14 DAEFDVIVIGAGAAGMSAALFAAIAGLKV-LLVERTEYVG 52
>gnl|CDD|180410 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 38.6 bits (91), Expect = 0.006
Identities = 17/29 (58%), Positives = 19/29 (65%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YD+IVIGGG G +A AA GA ALI
Sbjct: 5 YDLIVIGGGSGGIASANRAAMYGAKVALI 33
>gnl|CDD|181140 PRK07843, PRK07843, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 557
Score = 38.1 bits (89), Expect = 0.007
Identities = 16/34 (47%), Positives = 21/34 (61%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
M + YDV+V+G G AG AA AA G ST ++
Sbjct: 3 MTVQEYDVVVVGSGAAGMVAALTAAHRGLSTVVV 36
>gnl|CDD|185217 PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F;
Provisional.
Length = 517
Score = 37.8 bits (89), Expect = 0.008
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHK 37
YDV+V+GGG AG AA AA+ G T ++ +
Sbjct: 212 YDVLVVGGGPAGAAAAIYAARKGIRTGIVAER 243
Score = 28.6 bits (65), Expect = 4.4
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 7 DVIVIGGGHAGCEAA 21
V VIGGG++G EAA
Sbjct: 353 RVAVIGGGNSGVEAA 367
>gnl|CDD|171762 PRK12839, PRK12839, hypothetical protein; Provisional.
Length = 572
Score = 37.5 bits (87), Expect = 0.009
Identities = 19/38 (50%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
+YDV+V+G G AG +AAVAA G + L+ K ST G
Sbjct: 8 TYDVVVVGSG-AGGLSAAVAAAYGGAKVLVVEKASTCG 44
>gnl|CDD|162664 TIGR02023, BchP-ChlP, geranylgeranyl reductase. This model
represents a group of geranylgeranyl reductases
specific for the biosyntheses of bacteriochlorophyll
and chlorophyll. It is unclear whether the processes of
isoprenoid ligation to the chlorin ring and reduction
of the geranylgeranyl chain to a phytyl chain are
necessarily ordered the same way in all species (see
introduction to ).
Length = 388
Score = 37.5 bits (87), Expect = 0.010
Identities = 24/66 (36%), Positives = 31/66 (46%), Gaps = 6/66 (9%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVREIDAL 65
YDV VIGGG +G AA A+ G T L+ S + P G + L+ E D
Sbjct: 1 YDVAVIGGGPSGATAAETLARAGIETILLERALS-----NIKPCGGAIPPC-LIEEFDIP 54
Query: 66 DGLMGR 71
D L+ R
Sbjct: 55 DSLIDR 60
>gnl|CDD|180409 PRK06115, PRK06115, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 37.5 bits (87), Expect = 0.011
Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCN 47
SYDV++IGGG G AA A +LG A + + ST+G N
Sbjct: 3 SYDVVIIGGGPGGYNAAIRAGQLGLKVACVEGR-STLGGTCLN 44
>gnl|CDD|185416 PTZ00052, PTZ00052, thioredoxin reductase; Provisional.
Length = 499
Score = 37.5 bits (87), Expect = 0.011
Identities = 19/39 (48%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITH-KTSTIGS 43
YD++VIGGG G AA AA G AL + K ST G+
Sbjct: 6 YDLVVIGGGSGGMAAAKEAAAHGKKVALFDYVKPSTQGT 44
>gnl|CDD|181345 PRK08274, PRK08274, tricarballylate dehydrogenase; Validated.
Length = 466
Score = 37.2 bits (87), Expect = 0.013
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV+VIGGG+A AA A + GAS L+
Sbjct: 2 ASMVDVLVIGGGNAALCAALAAREAGASVLLL 33
>gnl|CDD|162359 TIGR01438, TGR, thioredoxin and glutathione reductase
selenoprotein. This homodimeric, FAD-containing member
of the pyridine nucleotide disulfide oxidoreductase
family contains a C-terminal motif Cys-SeCys-Gly, where
SeCys is selenocysteine encoded by TGA (in some
sequence reports interpreted as a stop codon). In some
members of this subfamily, Cys-SeCys-Gly is replaced by
Cys-Cys-Gly. The reach of the selenium atom at the
C-term arm of the protein is proposed to allow broad
substrate specificity.
Length = 484
Score = 37.1 bits (86), Expect = 0.014
Identities = 18/35 (51%), Positives = 20/35 (57%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTST 40
YD+IVIGGG G AA AA GA L+ T T
Sbjct: 3 YDLIVIGGGSGGLAAAKEAADYGAKVMLLDFVTPT 37
>gnl|CDD|181132 PRK07818, PRK07818, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 36.9 bits (86), Expect = 0.017
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHK 37
YDV+V+G G G AA AA+LG TA++ K
Sbjct: 5 YDVVVLGAGPGGYVAAIRAAQLGLKTAVVEKK 36
>gnl|CDD|181289 PRK08205, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 583
Score = 36.5 bits (85), Expect = 0.019
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
M YDV+++G G AG AA A A TA++T
Sbjct: 1 MQQHRYDVVIVGAGGAGMRAAIEAGP-RARTAVLT 34
>gnl|CDD|132421 TIGR03378, glycerol3P_GlpB, glycerol-3-phosphate dehydrogenase,
anaerobic, B subunit. Members of this protein family
are the B subunit, product of the glpB gene, of a
three-subunit, membrane-anchored, FAD-dependent
anaerobic glycerol-3-phosphate dehydrogenase.
Length = 419
Score = 36.5 bits (85), Expect = 0.020
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTI----GSM 44
+DVI+IGGG AG A A+ G A+I S + GS+
Sbjct: 1 FDVIIIGGGLAGLSCALRLAEAGKKCAIIAAGQSALHFSSGSL 43
>gnl|CDD|181564 PRK08849, PRK08849,
2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Provisional.
Length = 384
Score = 36.3 bits (84), Expect = 0.022
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALITHK 37
YD+ V+GGG G A AK G S A+I
Sbjct: 3 KYDIAVVGGGMVGAATALGFAKQGRSVAVIEGG 35
>gnl|CDD|180319 PRK05945, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 575
Score = 36.2 bits (84), Expect = 0.023
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGAST--ALITHKTSTIGSMSCNPAIGGL 53
+DV+++GGG AGC AA +L S A++ KT I S S A GG+
Sbjct: 4 HDVVIVGGGLAGCRAALEIKRLDPSLDVAVVA-KTHPIRSHSV-AAQGGI 51
>gnl|CDD|180333 PRK05976, PRK05976, dihydrolipoamide dehydrogenase; Validated.
Length = 472
Score = 36.0 bits (84), Expect = 0.028
Identities = 43/169 (25%), Positives = 66/169 (39%), Gaps = 35/169 (20%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGG--LGKG---- 56
+ YD+++IGGG G AA A +LG TAL+ +GG L KG
Sbjct: 2 AKEYDLVIIGGGPGGYVAAIRAGQLGLKTALVEKG-----------KLGGTCLHKGCIPS 50
Query: 57 -HLVREIDALDGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQA--DRELYRLAMQRE-IL 112
L+ + + A GI GPA+ + Q D + RL +L
Sbjct: 51 KALLHSAEVFQTA--KKASPFGISVS------GPALDFAKVQERKDGIVDRLTKGVAALL 102
Query: 113 SQENLDVIQGE--VAG---FNTEKNIIS-SIVMQDNSMIRCSTVVLTTG 155
+ +DV G + G F+ +S +N MI +++ TG
Sbjct: 103 KKGKIDVFHGIGRILGPSIFSPMPGTVSVETETGENEMIIPENLLIATG 151
>gnl|CDD|180419 PRK06134, PRK06134, putative FAD-binding dehydrogenase; Reviewed.
Length = 581
Score = 35.9 bits (83), Expect = 0.031
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
DV+VIG G AG AA AA G ++ K G
Sbjct: 11 LECDVLVIGSGAAGLSAAVTAAWHGLKVIVV-EKDPVFG 48
>gnl|CDD|181594 PRK08958, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 588
Score = 35.9 bits (83), Expect = 0.033
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
R +D +VIG G AG AA ++ G S AL++
Sbjct: 6 REFDAVVIGAGGAGMRAALQISQSGQSCALLS 37
>gnl|CDD|181641 PRK09078, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 598
Score = 35.7 bits (83), Expect = 0.033
Identities = 16/34 (47%), Positives = 20/34 (58%)
Query: 2 INRSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
I+ YDV+V+G G AG A A+ G TA IT
Sbjct: 9 IDHKYDVVVVGAGGAGLRATLGMAEAGLKTACIT 42
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 557
Score = 35.5 bits (82), Expect = 0.040
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
+YDV+V+G G G AA AA G LI K +G
Sbjct: 5 ETYDVVVVGSGGGGMCAALAAADSGLEP-LIVEKQDKVG 42
>gnl|CDD|178083 PLN02464, PLN02464, glycerol-3-phosphate dehydrogenase.
Length = 627
Score = 35.5 bits (82), Expect = 0.041
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV+V+GGG G A AA G L+
Sbjct: 69 AEPLDVLVVGGGATGAGVALDAATRGLRVGLV 100
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 35.5 bits (82), Expect = 0.043
Identities = 19/38 (50%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMS 45
VIV+GGG AGC AA AA GA L+ K + +G S
Sbjct: 412 VIVVGGGLAGCSAAIEAASCGAQVILL-EKEAKLGGNS 448
>gnl|CDD|161797 TIGR00275, TIGR00275, flavoprotein, HI0933 family. The model
when searched with a partial length search brings in
proteins with a dinucleotide-binding motif (Rossman
fold) over the initial 40 residues of the model,
including oxidoreductases and dehydrogenases. Partially
characterized members include an FAD-binding protein
from Bacillus cereus and flavoprotein HI0933 from
Haemophilus influenzae.
Length = 400
Score = 35.3 bits (82), Expect = 0.046
Identities = 17/35 (48%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 9 IVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGS 43
I+IGGG AG AA AA+ G S L+ K IG
Sbjct: 1 IIIGGGAAGLMAAITAAREGLSVLLL-EKNKKIGK 34
Score = 34.9 bits (81), Expect = 0.065
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 10/47 (21%)
Query: 346 INPKELFPTLETKKISGLFLAGQ---INGTTG---YEEAAAQGLVAG 386
INPK T+E+K + GL+ AG+ ++G TG + A + G +AG
Sbjct: 357 INPK----TMESKLVPGLYFAGEVLDVDGDTGGYNLQWAWSSGYLAG 399
>gnl|CDD|184334 PRK13800, PRK13800, putative oxidoreductase/HEAT
repeat-containing protein; Provisional.
Length = 897
Score = 35.2 bits (81), Expect = 0.047
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV+VIGGG AG AA AA+ GA+ L+
Sbjct: 15 DVLVIGGGTAGTMAALTAAEHGANVLLL 42
>gnl|CDD|183388 PRK12266, glpD, glycerol-3-phosphate dehydrogenase; Reviewed.
Length = 508
Score = 35.1 bits (82), Expect = 0.058
Identities = 14/28 (50%), Positives = 16/28 (57%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTAL 33
YD++VIGGG G A AA G S L
Sbjct: 7 YDLLVIGGGINGAGIARDAAGRGLSVLL 34
>gnl|CDD|185473 PTZ00139, PTZ00139, Succinate dehydrogenase [ubiquinone]
flavoprotein subunit; Provisional.
Length = 617
Score = 34.3 bits (79), Expect = 0.094
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
+I+ +YD +V+G G AG AA +LG TA I+
Sbjct: 25 VIDHTYDAVVVGAGGAGLRAALGLVELGYKTACIS 59
>gnl|CDD|162288 TIGR01292, TRX_reduct, thioredoxin-disulfide reductase. This
model describes thioredoxin-disulfide reductase, a
member of the pyridine nucleotide-disulphide
oxidoreductases (PFAM:PF00070).
Length = 300
Score = 34.1 bits (79), Expect = 0.098
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
YDVI+IG G AG AA AA+ T +I
Sbjct: 1 YDVIIIGAGPAGLTAAIYAARANLKTLIIEGME 33
>gnl|CDD|180382 PRK06069, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 577
Score = 33.9 bits (78), Expect = 0.11
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLG---ASTALITHKTSTIGSMS 45
YDV+++G G AG AA AA+ S A+++ KT + S S
Sbjct: 5 KYDVVIVGSGLAGLRAAVAAAERSGGKLSVAVVS-KTQPMRSHS 47
>gnl|CDD|177739 PLN00128, PLN00128, Succinate dehydrogenase [ubiquinone]
flavoprotein subunit.
Length = 635
Score = 33.7 bits (77), Expect = 0.14
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
+++ +YD +V+G G AG AA ++ G +TA IT
Sbjct: 46 IVDHTYDAVVVGAGGAGLRAAIGLSEHGFNTACIT 80
>gnl|CDD|130850 TIGR01790, carotene-cycl, lycopene cyclase family protein. This
family includes lycopene beta and epsilion cyclases
(which form beta and delta carotene, respectively) from
bacteria and plants as well as the plant
capsanthin/capsorubin and neoxanthin cyclases which
appear to have evolved from the plant lycopene cyclases.
The plant lycopene epsilon cyclases also transform
neurosporene to alpha zeacarotene.
Length = 388
Score = 33.6 bits (77), Expect = 0.15
Identities = 26/153 (16%), Positives = 51/153 (33%), Gaps = 19/153 (12%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGK-GHLVREIDAL 65
D+ VIGGG AG A A+ G + + +P I G G ++ L
Sbjct: 1 DLAVIGGGPAGLAIALELARPGLR----------VQLIEPHPPIPGNHTYGVWDDDLSDL 50
Query: 66 DGLMGRVADAAGIQFRVLNVKKGPAVRGPRTQADRELYRLAMQREILS---QENLDVIQG 122
+AD + + + P A + + E+L + + ++
Sbjct: 51 G-----LADCVEHVWPDVYEYRFPKQPRKLGTAYGSVDSTRLHEELLQKCPEGGVLWLER 105
Query: 123 EVAGFNTEKNIISSIVMQDNSMIRCSTVVLTTG 155
+ + +S++ I+ V+ G
Sbjct: 106 KAIHAEADGVALSTVYCAGGQRIQARLVIDARG 138
>gnl|CDD|178161 PLN02546, PLN02546, glutathione reductase.
Length = 558
Score = 33.7 bits (77), Expect = 0.16
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLG 54
+D+ IG G G A+ A+ GAS A+ +TI S +GG+G
Sbjct: 80 FDLFTIGAGSGGVRASRFASNFGASAAVCELPFATISS----DTLGGVG 124
>gnl|CDD|139246 PRK12814, PRK12814, putative NADPH-dependent glutamate synthase
small subunit; Provisional.
Length = 652
Score = 33.2 bits (76), Expect = 0.19
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPA 49
V+VIGGG+ +AA A +LGA + I ++ T M N A
Sbjct: 326 VVVIGGGNTAIDAARTALRLGAESVTILYR-RTREEMPANRA 366
>gnl|CDD|180907 PRK07251, PRK07251, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 438
Score = 33.2 bits (76), Expect = 0.20
Identities = 15/29 (51%), Positives = 17/29 (58%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YD+IVIG G AG AA A G AL+
Sbjct: 4 YDLIVIGFGKAGKTLAAKLASAGKKVALV 32
>gnl|CDD|183785 PRK12842, PRK12842, putative succinate dehydrogenase; Reviewed.
Length = 574
Score = 33.1 bits (76), Expect = 0.21
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLG 28
+ DV+VIG G G AA A KLG
Sbjct: 8 LTCDVLVIGSGAGGLSAAITARKLG 32
>gnl|CDD|181199 PRK08020, ubiF, 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Reviewed.
Length = 391
Score = 33.0 bits (76), Expect = 0.21
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
M N+ D+ ++GGG G A A+ G S A++ H
Sbjct: 1 MTNQPTDIAIVGGGMVGAALALGLAQHGFSVAVLEHAA 38
>gnl|CDD|183735 PRK12771, PRK12771, putative glutamate synthase (NADPH) small
subunit; Provisional.
Length = 564
Score = 33.3 bits (77), Expect = 0.22
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPA 49
V+VIGGG+ +AA A +LGA I ++ T M +
Sbjct: 270 VVVIGGGNTAMDAARTARRLGAEEVTIVYR-RTREDMPAHDE 310
>gnl|CDD|179368 PRK02106, PRK02106, choline dehydrogenase; Validated.
Length = 560
Score = 33.3 bits (77), Expect = 0.22
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKL 27
M YD I+IG G AGC +A +L
Sbjct: 1 MTTMEYDYIIIGAGSAGC---VLANRL 24
>gnl|CDD|180854 PRK07121, PRK07121, hypothetical protein; Validated.
Length = 492
Score = 32.9 bits (76), Expect = 0.24
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV+V+G G AG AA AA GA ++
Sbjct: 19 DEADVVVVGFGAAGACAAIEAAAAGARVLVL 49
>gnl|CDD|178382 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 32.9 bits (75), Expect = 0.25
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 5 SYDVIVIGGGHAGCEAAA 22
+YD IV+GGG AGC AA
Sbjct: 55 AYDYIVVGGGTAGCPLAA 72
>gnl|CDD|181040 PRK07573, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 640
Score = 32.9 bits (76), Expect = 0.25
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLG 28
R +DVIV+G G AG AAA +LG
Sbjct: 34 RKFDVIVVGTGLAGASAAATLGELG 58
>gnl|CDD|162990 TIGR02733, desat_CrtD, C-3',4' desaturase CrtD. Members of this
family are slr1293, a carotenoid biosynthesis protein
which was shown to be the C-3',4' desaturase (CrtD) of
myxoxanthophyll biosynthesis in Synechocystis sp.
strain PCC 6803, and close homologs (presumed to be
functionally equivalent) from other cyanobacteria,
where myxoxanthophyll biosynthesis is either known or
expected. This enzyme can act on neurosporene and so
presumably catalyzes the first step that is committed
to myxoxanthophyll.
Length = 492
Score = 32.8 bits (75), Expect = 0.27
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
V+VIG G AG AAA+ AK G L+
Sbjct: 4 VVVIGAGIAGLTAAALLAKRGYRVTLL 30
>gnl|CDD|182194 PRK10015, PRK10015, oxidoreductase; Provisional.
Length = 429
Score = 32.6 bits (74), Expect = 0.28
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGS 43
M + +D IV+G G AG AA V A+ G L+ + + G
Sbjct: 1 MSDDKFDAIVVGAGVAGSVAALVMARAGLDV-LVIERGDSAGC 42
>gnl|CDD|162543 TIGR01813, flavo_cyto_c, flavocytochrome c. This model describes
a family of redox proteins related to the succinate
dehydrogenases and fumarate reductases of E. coli,
mitochondria, and other well-characterized systems. A
member of this family from Shewanella frigidimarina
NCIMB400 is characterized as a water-soluble
periplasmic protein with four heme groups, a
non-covalently bound FAD, and essentially
unidirectional fumarate reductase activity. At least
seven distinct members of this family are found in
Shewanella oneidensis, a species able to use a wide
variety of pathways for respiraton.
Length = 439
Score = 32.7 bits (75), Expect = 0.28
Identities = 20/48 (41%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLG 54
DV+V+G G AG AA A K GA+ ++ K IG N AI G
Sbjct: 1 DVVVVGSGFAGLSAALSAKKAGAANVVLLEKMPVIGG---NSAIAAGG 45
>gnl|CDD|178082 PLN02463, PLN02463, lycopene beta cyclase.
Length = 447
Score = 32.8 bits (75), Expect = 0.31
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
R D++V+GGG AG A ++ G S I
Sbjct: 27 RVVDLVVVGGGPAGLAVAQQVSEAGLSVCCI 57
>gnl|CDD|129609 TIGR00518, alaDH, alanine dehydrogenase. The family of known
L-alanine dehydrogenases includes representatives from
the Proteobacteria, Firmicutes, and Cyanobacteria, all
with about 50 % identity or better. An outlier to this
group in both sequence and gap pattern is the homolog
from Helicobacter pylori, an epsilon division
Proteobacteria, which must be considered a putative
alanine dehydrogenase. Related proteins include
saccharopine dehydrogenase and the N-terminal half of
the NAD(P) transhydrogenase alpha subunit. All of these
related proteins bind NAD and/or NADP.
Length = 370
Score = 32.2 bits (73), Expect = 0.38
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV +IGGG G AA +A LGA+ ++
Sbjct: 169 DVTIIGGGVVGTNAAKMANGLGATVTIL 196
>gnl|CDD|180814 PRK07057, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 591
Score = 32.1 bits (73), Expect = 0.39
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
R +DV+++G G +G A+ A+ G S A+++
Sbjct: 10 RRKFDVVIVGAGGSGMRASLQLARAGLSVAVLS 42
>gnl|CDD|180567 PRK06452, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 566
Score = 32.2 bits (73), Expect = 0.39
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
M YD +VIGGG AG +A A G A+I+
Sbjct: 1 MEKIEYDAVVIGGGLAGLMSAHEIASAGFKVAVIS 35
>gnl|CDD|130444 TIGR01377, soxA_mon, sarcosine oxidase, monomeric form.
Sarcosine oxidase catalyzes the oxidative demethylation
of sarcosine to glycine. The reaction converts
tetrahydrofolate to 5,10-methylene-tetrahydrofolate.
The enzyme is known in monomeric and heterotetrameric
(alpha,beta,gamma,delta) forms.
Length = 380
Score = 32.1 bits (73), Expect = 0.39
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALI 34
+DVIV+G G GC AA AK G T L+
Sbjct: 1 FDVIVVGAGIMGCFAAYHLAKHGKKTLLL 29
>gnl|CDD|178300 PLN02697, PLN02697, lycopene epsilon cyclase.
Length = 529
Score = 32.1 bits (73), Expect = 0.41
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
+ + D++VIG G AG AA +AKLG + LI
Sbjct: 106 DGTLDLVVIGCGPAGLALAAESAKLGLNVGLI 137
>gnl|CDD|181346 PRK08275, PRK08275, putative oxidoreductase; Provisional.
Length = 554
Score = 31.9 bits (73), Expect = 0.46
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKL 27
D++VIGGG AG AA+ AK
Sbjct: 9 ETDILVIGGGTAG-PMAAIKAKE 30
>gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed.
Length = 549
Score = 32.2 bits (74), Expect = 0.46
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALI 34
DVIV+G G AG AAA A G L+
Sbjct: 5 ADVIVVGAGLAGLVAAAELADAGKRVLLL 33
>gnl|CDD|162352 TIGR01424, gluta_reduc_2, glutathione-disulfide reductase, plant.
The tripeptide glutathione is an important reductant,
e.g., for maintaining the cellular thiol/disulfide
status and for protecting against reactive oxygen
species such as hydrogen peroxide.
Glutathione-disulfide reductase regenerates reduced
glutathione from oxidized glutathione (glutathione
disulfide) + NADPH. This model represents one of two
closely related subfamilies of glutathione-disulfide
reductase. Both are closely related to trypanothione
reductase, and separate models are built so each of the
three can describe proteins with conserved function.
This model describes glutathione-disulfide reductases
of plants and some bacteria, including cyanobacteria.
Length = 446
Score = 32.1 bits (73), Expect = 0.47
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTAL 33
YD+ VIG G G AA +AA GA A+
Sbjct: 3 YDLFVIGAGSGGVRAARLAANHGAKVAI 30
Score = 30.2 bits (68), Expect = 1.7
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHK 37
++++GGG+ E A + LG LI
Sbjct: 169 ILILGGGYIAVEFAGIWRGLGVQVTLIYRG 198
>gnl|CDD|179767 PRK04176, PRK04176, ribulose-1,5-biphosphate synthetase;
Provisional.
Length = 257
Score = 32.1 bits (74), Expect = 0.50
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSM 44
DV ++G G +G AA AK G A+ K S G M
Sbjct: 27 DVAIVGAGPSGLTAAYYLAKAGLKVAVFERKLSFGGGM 64
>gnl|CDD|180957 PRK07395, PRK07395, L-aspartate oxidase; Provisional.
Length = 553
Score = 31.9 bits (73), Expect = 0.53
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGAS--TALITHKTSTIGS 43
++ +DV+V+G G AG A A L + LIT T +
Sbjct: 5 ILPSQFDVLVVGSGAAGLYA---ALCLPSHLRVGLITKDTLKTSA 46
>gnl|CDD|162324 TIGR01372, soxA, sarcosine oxidase, alpha subunit family,
heterotetrameric form. This model describes the alpha
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason.Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms.
Length = 985
Score = 31.6 bits (72), Expect = 0.54
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALI 34
DV+V+G G AG AA AA+ GA L+
Sbjct: 165 DVLVVGAGPAGLAAALAAARAGARVILV 192
>gnl|CDD|180733 PRK06854, PRK06854, adenylylsulfate reductase subunit alpha;
Validated.
Length = 608
Score = 31.8 bits (73), Expect = 0.58
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLG 28
D+++IGGG AGC AA A +
Sbjct: 13 DILIIGGGMAGCGAAFEAKEWA 34
>gnl|CDD|183783 PRK12835, PRK12835, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
Length = 584
Score = 31.3 bits (71), Expect = 0.71
Identities = 27/105 (25%), Positives = 42/105 (40%), Gaps = 27/105 (25%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLG-------- 54
+R DV+V+G G G AA AA G T L+ K++ G + A+ G G
Sbjct: 9 DREVDVLVVGSGGGGMTAALTAAARGLDT-LVVEKSAHFGGST---ALSGGGIWVPGAPA 64
Query: 55 ---KGH------LVREIDALDGLMGRVADAAGIQFRVLNVKKGPA 90
+G+ + R + + G G V+ A + V P
Sbjct: 65 QRREGYVPDPEDVRRYLKQITG--GLVSAARLRAY----VDAAPQ 103
>gnl|CDD|181057 PRK07608, PRK07608, ubiquinone biosynthesis hydroxylase family
protein; Provisional.
Length = 388
Score = 31.5 bits (72), Expect = 0.74
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
+DV+V+GGG G A A+ G AL+
Sbjct: 5 KFDVVVVGGGLVGASLALALAQSGLRVALL 34
>gnl|CDD|185420 PTZ00058, PTZ00058, glutathione reductase; Provisional.
Length = 561
Score = 31.1 bits (70), Expect = 0.78
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YD+IVIGGG G AA AA+ A AL+
Sbjct: 46 RMVYDLIVIGGGSGGMAAARRAARNKAKVALV 77
>gnl|CDD|185578 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 31.4 bits (71), Expect = 0.79
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLG 28
N YDVI++GG AG A +K G
Sbjct: 31 NYDYDVIIVGGSIAGPVLAKALSKQG 56
>gnl|CDD|161807 TIGR00292, TIGR00292, thiazole biosynthesis enzyme. This enzyme
is involved in the biosynthesis of the thiamine
precursor thiazole, and is repressed by thiamine.This
family includes c-thi1, a Citrus gene induced during
natural and ethylene induced fruit maturation and is
highly homologous to plant and yeast thi genes involved
in thiamine biosynthesis.
Length = 254
Score = 31.0 bits (70), Expect = 0.87
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSM 44
DVI++G G +G AA AK G ++ + G
Sbjct: 23 DVIIVGAGPSGLTAAYYLAKNGLKVCVLERSLAFGGGS 60
>gnl|CDD|114555 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest
light for photosynthesis, and dissipate excess light
energy absorbed by the antenna pigments. The
cyclisation of lycopene (psi, psi-carotene) is a key
branch point in the pathway of carotenoid biosynthesis.
Two types of cyclic end groups are found in higher
plant carotenoids: the beta and epsilon rings.
Carotenoids with two beta rings are ubiquitous, and
those with one beta and one epsilon ring are common;
however, carotenoids with two epsilon rings are rare.
Length = 374
Score = 31.1 bits (71), Expect = 0.95
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 7 DVIVIGGGHAGCEAAA--VAAKLGASTALI 34
D++++G G AG A A+ G LI
Sbjct: 1 DLVIVGAGLAGLLLALRLRQARPGLRVLLI 30
>gnl|CDD|161941 TIGR00585, mutl, DNA mismatch repair protein MutL. All proteins in
this family for which the functions are known are
involved in the process of generalized mismatch repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University).
Length = 312
Score = 31.1 bits (71), Expect = 1.00
Identities = 13/64 (20%), Positives = 22/64 (34%), Gaps = 6/64 (9%)
Query: 459 RRQKRFAKYIQEYNFLRSLLKSLVLTSKNLSSTSISFKQDGKTRTAYEFLSYPDF---SI 515
R+K +E+ + LL L ++ S S DGK I
Sbjct: 156 VRRKFLKSPKKEFRKILDLLNRYALIHPDV---SFSLTHDGKKVLQLSTKPNQSLKERRI 212
Query: 516 QNLF 519
+++F
Sbjct: 213 RSVF 216
>gnl|CDD|181125 PRK07804, PRK07804, L-aspartate oxidase; Provisional.
Length = 541
Score = 31.1 bits (71), Expect = 1.0
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALIT 35
DV+V+G G AG AA A + G ++T
Sbjct: 18 DVVVVGSGVAGLTAALAARRAGRRVLVVT 46
>gnl|CDD|179330 PRK01747, mnmC, bifunctional tRNA
(mnm(5)s(2)U34)-methyltransferase/FAD-dependent
cmnm(5)s(2)U34 oxidoreductase; Reviewed.
Length = 662
Score = 31.0 bits (71), Expect = 1.0
Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 7 DVIVIGGGHAGCEAAAVAAKL 27
D +IGGG AG A+A L
Sbjct: 262 DAAIIGGGIAGA---ALALAL 279
>gnl|CDD|180495 PRK06263, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 543
Score = 30.7 bits (70), Expect = 1.1
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
DV++IG G AG AA A + +I K
Sbjct: 9 DVLIIGSGGAGARAAIEAERGK--NVVIVSKG 38
>gnl|CDD|180054 PRK05396, tdh, L-threonine 3-dehydrogenase; Validated.
Length = 341
Score = 30.6 bits (70), Expect = 1.4
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALIT 35
DV++ G G G AAAVA +GA +IT
Sbjct: 166 DVLITGAGPIGIMAAAVAKHVGARHVVIT 194
>gnl|CDD|184008 PRK13369, PRK13369, glycerol-3-phosphate dehydrogenase;
Provisional.
Length = 502
Score = 30.3 bits (69), Expect = 1.4
Identities = 13/33 (39%), Positives = 15/33 (45%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTAL 33
+YD+ VIGGG G A AA G L
Sbjct: 2 AEPETYDLFVIGGGINGAGIARDAAGRGLKVLL 34
>gnl|CDD|178123 PLN02507, PLN02507, glutathione reductase.
Length = 499
Score = 30.2 bits (68), Expect = 1.6
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGGLGKGHLVR 60
+D+ VIG G G AA +A GA + I S S IGG+G ++R
Sbjct: 26 FDLFVIGAGSGGVRAARFSANFGAKVGICELPFHPISSES----IGGVGGTCVIR 76
>gnl|CDD|171764 PRK12845, PRK12845, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 564
Score = 30.1 bits (68), Expect = 1.6
Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 13/81 (16%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGS----------MSCNPAIGGLGKG 56
D++V+G G G AA A +LG S LI K+S +G + +P + G G
Sbjct: 18 DLLVVGSG-TGMAAALAAHELGLSV-LIVEKSSYVGGSTARSGGAFWLPASPVLDEAGAG 75
Query: 57 H-LVREIDALDGLMGRVADAA 76
L R LD ++G A A
Sbjct: 76 DTLERARTYLDSVVGGSAPAE 96
>gnl|CDD|132409 TIGR03366, HpnZ_proposed, putative phosphonate catabolism
associated alcohol dehydrogenase. This clade of
zinc-binding alcohol dehydrogenases (members of
pfam00107) are repeatedly associated with genes proposed
to be involved with the catabolism of phosphonate
compounds.
Length = 280
Score = 30.2 bits (68), Expect = 1.6
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTAL 33
V+V+G G G AAA AA GA+ +
Sbjct: 124 VLVVGAGMLGLTAAAAAAAAGAARVV 149
>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
subunit. This family of thioredoxin reductase homologs
is found adjacent to alkylhydroperoxide reductase C
subunit predominantly in cases where there is only one
C subunit in the genome and that genome is lacking the
F subunit partner (also a thioredcxin reductase
homolog) that is usually found (TIGR03140).
Length = 555
Score = 30.1 bits (68), Expect = 1.7
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YD+I+IGGG AG A A + T +I
Sbjct: 2 EEIYDLIIIGGGPAGLSAGIYAGRAKLDTLII 33
>gnl|CDD|180743 PRK06912, acoL, dihydrolipoamide dehydrogenase; Validated.
Length = 458
Score = 30.1 bits (68), Expect = 1.8
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
++VIGGG AG AA AA+ G + LI
Sbjct: 3 LVVIGGGPAGYVAAITAAQNGKNVTLI 29
Score = 27.8 bits (62), Expect = 9.1
Identities = 9/27 (33%), Positives = 19/27 (70%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALI 34
++++GGG GCE A++ ++LG ++
Sbjct: 173 LLIVGGGVIGCEFASIYSRLGTKVTIV 199
>gnl|CDD|170080 PRK09754, PRK09754, phenylpropionate dioxygenase ferredoxin
reductase subunit; Provisional.
Length = 396
Score = 29.9 bits (67), Expect = 1.9
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNP 48
V+++G G G E AA A + +I + +G P
Sbjct: 147 VVIVGAGTIGLELAASATQRRCKVTVIELAATVMG--RNAP 185
>gnl|CDD|183740 PRK12779, PRK12779, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase;
Provisional.
Length = 944
Score = 29.8 bits (67), Expect = 2.0
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
+ +V VIGGG+ +AA A +LG + ++ +T
Sbjct: 446 KGKEVFVIGGGNTAMDAARTAKRLGGNVTIVYRRT 480
>gnl|CDD|181507 PRK08626, PRK08626, fumarate reductase flavoprotein subunit;
Provisional.
Length = 657
Score = 29.9 bits (68), Expect = 2.1
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGAST 31
D +VIG G AG A AA+ G T
Sbjct: 7 DALVIGAGLAGLRVAIAAAQRGLDT 31
>gnl|CDD|180584 PRK06481, PRK06481, fumarate reductase flavoprotein subunit;
Validated.
Length = 506
Score = 29.8 bits (67), Expect = 2.2
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YD++++G G AG AA A G + ++
Sbjct: 61 KYDIVIVGAGGAGMSAAIEAKDAGMNPVIL 90
>gnl|CDD|173442 PTZ00153, PTZ00153, lipoamide dehydrogenase; Provisional.
Length = 659
Score = 29.9 bits (67), Expect = 2.2
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG----SMSCNPAIGGLGKGHLVRE 61
YDV +IG G G AA A + G + T +IG ++ C P+ L RE
Sbjct: 117 YDVGIIGCGVGGHAAAINAMERGLKVIIFTGDDDSIGGTCVNVGCIPSKALLYATGKYRE 176
Query: 62 IDALDGL 68
+ L L
Sbjct: 177 LKNLAKL 183
>gnl|CDD|173619 PTZ00429, PTZ00429, beta-adaptin; Provisional.
Length = 746
Score = 29.5 bits (66), Expect = 2.5
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 556 IKFEEKRLIPKDFDYSSLPALSNELKEKLSILKPFNLLQ--------ASKIEGMTPAALN 607
+K E+ RL+ K S P + EL E S + +++ A K++ + P N
Sbjct: 349 VKLEKLRLLLKLVTPSVAPEILKELAEYASGVDMVFVVEVVRAIASLAIKVDSVAPDCAN 408
Query: 608 LLLIYIKKNTVKLNEIV 624
LLL + + L ++V
Sbjct: 409 LLLQIVDRRPELLPQVV 425
>gnl|CDD|162643 TIGR01989, COQ6, Ubiquinone biosynthesis mono0xygenase COQ6.
This model represents the monooxygenase responsible for
the 4-hydroxylateion of the phenol ring in the aerobic
biosynthesis of ubiquinone.
Length = 437
Score = 29.7 bits (67), Expect = 2.6
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 4/44 (9%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPA 49
+DV+++GGG G A+AA LG + + NP
Sbjct: 1 FDVVIVGGGPVG---LALAAALGNNPLT-KDLKVLLLDAVDNPK 40
>gnl|CDD|182273 PRK10157, PRK10157, putative oxidoreductase FixC; Provisional.
Length = 428
Score = 29.5 bits (66), Expect = 2.7
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTS 39
+D I++G G AG AA V A+ GA +I S
Sbjct: 6 FDAIIVGAGLAGSVAALVLAREGAQVLVIERGNS 39
>gnl|CDD|184298 PRK13748, PRK13748, putative mercuric reductase; Provisional.
Length = 561
Score = 29.3 bits (66), Expect = 2.7
Identities = 18/47 (38%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCN 47
R V VIG G A AA A + GA LI + TIG N
Sbjct: 94 GNERPLHVAVIGSGGAAMAAALKAVEQGARVTLI--ERGTIGGTCVN 138
>gnl|CDD|183739 PRK12778, PRK12778, putative bifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta;
Provisional.
Length = 752
Score = 29.3 bits (66), Expect = 2.8
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHKTS 39
V V+GGG+ ++A A +LGA I ++ S
Sbjct: 573 VAVVGGGNTAMDSARTAKRLGAERVTIVYRRS 604
>gnl|CDD|181196 PRK08010, PRK08010, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 441
Score = 29.2 bits (65), Expect = 2.9
Identities = 15/42 (35%), Positives = 18/42 (42%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCN 47
Y ++IG G AG A AK G ALI + G N
Sbjct: 4 YQAVIIGFGKAGKTLAVTLAKAGWRVALIEQSNAMYGGTCIN 45
>gnl|CDD|161923 TIGR00551, nadB, L-aspartate oxidase. L-aspartate oxidase is the
B protein, NadB, of the quinolinate synthetase complex.
Quinolinate synthetase makes a precursor of the
pyridine nucleotide portion of NAD. This model
identifies proteins that cluster as L-aspartate oxidase
(a flavoprotein difficult to separate from the set of
closely related flavoprotein subunits of succinate
dehydrogenase and fumarate reductase) by both UPGMA and
neighbor-joining trees. The most distant protein
accepted as an L-aspartate oxidase (NadB), that from
Pyrococcus horikoshii, not only clusters with other
NadB but is just one gene away from NadA.
Length = 488
Score = 29.4 bits (66), Expect = 3.0
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGS 43
S DV+VIG G AG AA A G +++ T G+
Sbjct: 2 SCDVVVIGSGAAGLSAALALADQG-RVIVLSKAPVTEGN 39
>gnl|CDD|178472 PLN02884, PLN02884, 6-phosphofructokinase.
Length = 411
Score = 29.4 bits (66), Expect = 3.1
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 248 ETHRIIMENIKHSAIYSGDIKSYGPRYCPSIEDKIVRFGERNGHQIFLEPEGLNTDVVYP 307
R++++ IK+S+ S + P C +E + R G R +I+ EPE + +V
Sbjct: 5 NDDRVLLKVIKYSSPTSAGAECIDPD-CSWVEQWVHRAGPRK--KIYFEPEEVKAAIVTC 61
Query: 308 NGISTALPEEIQH-QFIRTIPGLEKVNIIRPGY 339
G+ L + I+ F I G++ + I GY
Sbjct: 62 GGLCPGLNDVIRQIVFTLEIYGVKNIVGIPFGY 94
>gnl|CDD|130383 TIGR01316, gltA, glutamate synthase (NADPH), homotetrameric. This
protein is homologous to the small subunit of NADPH and
NADH forms of glutamate synthase as found in eukaryotes
and some bacteria. This protein is found in numerous
species having no homolog of the glutamate synthase
large subunit. The prototype of the family, from
Pyrococcus sp. KOD1, was shown to be active as a
homotetramer and to require NADPH.
Length = 449
Score = 29.1 bits (65), Expect = 3.2
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
V+VIGGG+ ++A A +LGA + +T
Sbjct: 275 VVVIGGGNTAVDSARTALRLGAEVHCLYRRT 305
>gnl|CDD|130870 TIGR01811, sdhA_Bsu, succinate dehydrogenase or fumarate
reductase, flavoprotein subunit, Bacillus subtilis
subgroup. This model represents the succinate
dehydrogenase flavoprotein subunit as found in the
low-GC Gram-positive bacteria and a few other lineages.
This enzyme may act in a complete or partial TCA cycle,
or act in the opposite direction as fumarate reductase.
In some but not all species, succinate dehydrogenase
and fumarate reductase may be encoded as separate
isozymes.
Length = 603
Score = 29.0 bits (65), Expect = 3.2
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALIT 35
VIV+G G AG AAA A+LG L +
Sbjct: 1 VIVVGTGLAGGMAAAKLAELGYHVKLFS 28
>gnl|CDD|181663 PRK09126, PRK09126, hypothetical protein; Provisional.
Length = 392
Score = 29.1 bits (66), Expect = 3.2
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
D++V+G G AG A A G LI
Sbjct: 2 MHSDIVVVGAGPAGLSFARSLAGSGLKVTLI 32
>gnl|CDD|163271 TIGR03453, partition_RepA, plasmid partitioning protein RepA.
Members of this family are the RepA (or ParA) protein
involved in replicon partitioning. All known examples
occur in bacterial species with two or more replicons,
on a plasmid or the smaller chromosome. Note that an
apparent exception may be seen as a pseudomolecule from
assembly of an incompletely sequenced genome. Members of
this family belong to a larger family that also includes
the enzyme cobyrinic acid a,c-diamide synthase, but
assignment of that name to members of this family would
be in error.
Length = 387
Score = 29.2 bits (66), Expect = 3.3
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 473 FLRSLLKSLVLTSKNLSSTSIS 494
FLRSL VLT+ L ST+IS
Sbjct: 320 FLRSLFGDHVLTNPMLKSTAIS 341
>gnl|CDD|168991 PRK07524, PRK07524, hypothetical protein; Provisional.
Length = 535
Score = 29.2 bits (66), Expect = 3.7
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 8 VIVIGGG--HAGCEAAAVAAKLGASTALITH 36
+I+ GGG A A+A +L A AL +
Sbjct: 205 LILAGGGALAAAAALRALAERLDAPVALTIN 235
>gnl|CDD|129775 TIGR00692, tdh, L-threonine 3-dehydrogenase. E. coli His-90
modulates substrate specificity and is believed part of
the active site.
Length = 340
Score = 29.1 bits (65), Expect = 3.8
Identities = 11/32 (34%), Positives = 15/32 (46%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
V+V G G G A AVA GA +++
Sbjct: 164 SVLVTGAGPIGLMAIAVAKASGAYPVIVSDPN 195
>gnl|CDD|162827 TIGR02374, nitri_red_nirB, nitrite reductase [NAD(P)H], large
subunit.
Length = 785
Score = 29.0 bits (65), Expect = 3.9
Identities = 15/36 (41%), Positives = 17/36 (47%)
Query: 1 MINRSYDVIVIGGGHAGCEAAAVAAKLGASTALITH 36
M R VIGGG G EAA LG ++I H
Sbjct: 136 MAQRFKKAAVIGGGLLGLEAAVGLQNLGMDVSVIHH 171
>gnl|CDD|162642 TIGR01988, Ubi-OHases, Ubiquinone biosynthesis hydroxylase,
UbiH/UbiF/VisC/COQ6 family. This model represents a
family of FAD-dependent hydroxylases (monooxygenases)
which are all believed to act in the aerobic ubiquinone
biosynthesis pathway. A separate set of hydroxylases,
as yet undiscovered, are believed to be active under
anaerobic conditions. In E. coli three enzyme
activities have been described, UbiB (which acts first
at position 6, see TIGR01982), UbiH (which acts at
position 4, ) and UbiF (which acts at position 5). UbiH
and UbiF are similar to one another and form the basis
of this subfamily. Interestingly, E. coli contains
another hydroxylase gene, called visC, that is highly
similar to UbiF, adjacent to UbiH and, when mutated,
results in a phenotype similar to that of UbiH (which
has also been named visB). Several other species appear
to have three homologs in this family, although they
assort themselves differently on phylogenetic trees
(e.g. Xylella and Mesorhizobium) making it difficult to
ascribe a specific activity to each one. Eukaryotes
appear to have only a single homolog in this subfamily
(COQ6) which complements UbiH, but also possess a
non-orthologous gene, COQ7 which complements UbiF.
Length = 385
Score = 28.7 bits (65), Expect = 4.2
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHK 37
D++++GGG G A A+ G ALI
Sbjct: 1 DIVIVGGGMVGLALALALARSGLKIALIEAT 31
>gnl|CDD|180885 PRK07208, PRK07208, hypothetical protein; Provisional.
Length = 479
Score = 28.7 bits (65), Expect = 4.4
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 7 DVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGSMSCNPAIGG 52
V++IG G AG AA K G ++ +G +S G
Sbjct: 6 SVVIIGAGPAGLTAAYELLKRGYPVTVL-EADPVVGGISRTVTYKG 50
>gnl|CDD|185592 PTZ00389, PTZ00389, 40S ribosomal protein S7; Provisional.
Length = 184
Score = 28.8 bits (65), Expect = 4.4
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 200 TPARLDGKT---IIWDKTEKQFADERLIPFSFMTDKITNRQIECGITRTN 246
T R+DG + D +++ +E+L FS + K+T R +
Sbjct: 135 TRVRVDGSKLLKVFLDPKDRKNVEEKLDAFSAVYKKLTGRDVVFEFPWDP 184
>gnl|CDD|183780 PRK12831, PRK12831, putative oxidoreductase; Provisional.
Length = 464
Score = 28.4 bits (64), Expect = 5.0
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 2 INRSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKT 38
I V V+GGG+ +AA A +LGA ++ ++
Sbjct: 278 IKVGKKVAVVGGGNVAMDAARTALRLGAEVHIVYRRS 314
>gnl|CDD|183060 PRK11259, solA, N-methyltryptophan oxidase; Provisional.
Length = 376
Score = 28.6 bits (65), Expect = 5.2
Identities = 12/29 (41%), Positives = 14/29 (48%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALI 34
YDVIVIG G G A A+ G +
Sbjct: 4 YDVIVIGLGSMGSAAGYYLARRGLRVLGL 32
>gnl|CDD|162881 TIGR02485, CobZ_N-term, precorrin 3B synthase CobZ. CobZ is
essential for cobalamin biosynthesis (by knockout of
the R. capsulatus gene ) and is complemented by the
characterized precorrin 3B synthase CobG. The enzyme
has been shown to contain flavin, heme and Fe-S cluster
cofactors and is believed to require dioxygen as a
substrate. This model identifies the N-terminal portion
of the R. capsulatus gene which, in other species
exists as a separate protein. The C-terminal portion is
homologous to the 2-component signal transduction
system protein CitB (TIGR02484).
Length = 432
Score = 28.3 bits (63), Expect = 5.8
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 10 VIGGGHAGCEAAAVAAKLGASTALI 34
VIGGG AG AA A + GAS L+
Sbjct: 1 VIGGGLAGLCAAIEARRAGASVLLL 25
>gnl|CDD|181247 PRK08137, PRK08137, amidase; Provisional.
Length = 497
Score = 28.2 bits (63), Expect = 5.9
Identities = 31/90 (34%), Positives = 37/90 (41%), Gaps = 21/90 (23%)
Query: 20 AAAVAAKLGASTALITHKTSTIGSMSCNPAIGGL----------GKGHLVREIDALD--G 67
AAVAA L A + T T GS++C AI GL + +V + D G
Sbjct: 167 GAAVAAGL----AAVAIGTETDGSITCPAAINGLVGLKPTVGLVSRDGIVPISHSQDTAG 222
Query: 68 LMGR-VADAAGIQFRVLNVKKGPAVRGPRT 96
M R VADAA VL G P T
Sbjct: 223 PMTRTVADAA----AVLTAIAGGDPADPAT 248
>gnl|CDD|163223 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins.
Length = 852
Score = 28.4 bits (64), Expect = 6.1
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 97 QADRELYRLAMQREIL-------SQENLDVIQGEVAGFNTEKNIISSI 137
+ DR + +L ++RE L S+E L+ ++ E+A E +
Sbjct: 409 ELDRRIIQLEIEREALKKEKDEASKERLEDLEKELAELEEEYADLEEQ 456
>gnl|CDD|130490 TIGR01423, trypano_reduc, trypanothione-disulfide reductase.
Trypanothione, a glutathione-modified derivative of
spermidine, is (in its reduced form) an important
antioxidant found in trypanosomatids (Crithidia,
Leishmania, Trypanosoma). This model describes
trypanothione reductase, a possible antitrypanosomal
drug target closely related to some forms of
glutathione reductase.
Length = 486
Score = 28.4 bits (63), Expect = 6.3
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 3 NRSYDVIVIGGGHAGCEAAAVAAKL 27
++++D++VIG G G EA AA L
Sbjct: 1 SKAFDLVVIGAGSGGLEAGWNAATL 25
>gnl|CDD|181516 PRK08641, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 589
Score = 28.4 bits (64), Expect = 6.4
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 8 VIVIGGGHAGCEAAAVAAKLGASTALIT 35
VIV+GGG AG A AA+ G L +
Sbjct: 6 VIVVGGGLAGLMATIKAAEAGVHVDLFS 33
>gnl|CDD|178280 PLN02676, PLN02676, polyamine oxidase.
Length = 487
Score = 28.1 bits (63), Expect = 6.6
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
S VI++G G +G AA ++ G LI T IG
Sbjct: 25 PSPSVIIVGAGMSGISAAKTLSEAGIEDILILEATDRIG 63
>gnl|CDD|178411 PLN02815, PLN02815, L-aspartate oxidase.
Length = 594
Score = 28.1 bits (63), Expect = 6.8
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALIT 35
+D +VIG G AG A A+ G + A+IT
Sbjct: 30 FDFLVIGSGIAGLRYALEVAEYG-TVAIIT 58
>gnl|CDD|184951 PRK14989, PRK14989, nitrite reductase subunit NirD; Provisional.
Length = 847
Score = 28.2 bits (63), Expect = 7.4
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 4 RSYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
RS V+GGG G EAA LG T +I
Sbjct: 144 RSKRGAVVGGGLLGLEAAGALKNLGVETHVI 174
>gnl|CDD|148569 pfam07027, DUF1318, Protein of unknown function (DUF1318). This
family consists of several bacterial proteins of around
100 residues in length and is often known as YdbL. The
function of this family is unknown.
Length = 95
Score = 27.9 bits (63), Expect = 7.5
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 6/44 (13%)
Query: 353 PTLETKKISGLFLAG-QINGTTGY---EEAAAQGLVAGINSARK 392
L+ K GL G Q++G G A+ LV IN+ R+
Sbjct: 9 LDLDEAKAQGL--VGEQLDGYLGVVKGASPEARALVDDINNKRR 50
>gnl|CDD|165249 PHA02939, PHA02939, hypothetical protein; Provisional.
Length = 144
Score = 28.0 bits (62), Expect = 7.7
Identities = 10/30 (33%), Positives = 23/30 (76%)
Query: 455 CIGERRQKRFAKYIQEYNFLRSLLKSLVLT 484
CI E+R++++ K I+E+N ++ +++ VL+
Sbjct: 115 CIDEKRREKYLKLIEEFNKVKEMIEKTVLS 144
>gnl|CDD|151718 pfam11277, Med24_N, Mediator complex subunit 24 N-terminal. This
subunit of the Mediator complex appears to be conserved
only from insects to humans. It is essential for correct
retinal development in fish. Subunit composition of the
mediator contributes to the control of differentiation
in the vertebrate CNS as there are divergent functions
of the mediator subunits Crsp34/Med27, Trap100/Med24,
and Crsp150/Med14.
Length = 991
Score = 27.9 bits (62), Expect = 7.7
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 140 QDNSMIRCSTVV--LTTGTFLRGVIHIGKLKIPA 171
Q+ + +C V+ + TFL ++HIGKL+ P
Sbjct: 151 QEEVLDQCLVVLERILQSTFLLALLHIGKLEEPE 184
>gnl|CDD|180946 PRK07364, PRK07364, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Validated.
Length = 415
Score = 28.1 bits (63), Expect = 7.8
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALI 34
+YDV ++GGG G AA G ALI
Sbjct: 18 TYDVAIVGGGIVGLTLAAALKDSGLRIALI 47
>gnl|CDD|161671 TIGR00031, UDP-GALP_mutase, UDP-galactopyranose mutase. The gene
is known as glf, ceoA, and rfbD. It is known
experimentally in E. coli, Mycobacterium tuberculosis,
and Klebsiella pneumoniae.
Length = 377
Score = 27.8 bits (62), Expect = 8.0
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 5 SYDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIG 42
+D I++G G +G A + A+L L+ K + IG
Sbjct: 1 MFDYIIVGAGLSGIVLANILAQLNKRV-LVVEKRNHIG 37
>gnl|CDD|132407 TIGR03364, HpnW_proposed, FAD dependent oxidoreductase TIGR03364.
This clade of FAD dependent oxidoreductases (members
of the pfam01266 family) is syntenically associated
with a family of proposed phosphonatase-like enzymes
(TIGR03351) and is also found (less frequently) in
association with phosphonate transporter components. A
likely role for this enzyme involves the oxidative
deamination of an aminophosphonate differring slightly
from 2-aminoethylphosphonate, possibly
1-hydroxy-2-aminoethylphosphonate (see the comments for
TIGR03351). Many members of the larger FAD dependent
oxidoreductase family act as amino acid oxidative
deaminases.
Length = 365
Score = 28.0 bits (63), Expect = 8.1
Identities = 20/82 (24%), Positives = 29/82 (35%), Gaps = 9/82 (10%)
Query: 6 YDVIVIGGGHAGCEAAAVAAKLGASTALITHKTSTIGS------MSCNPAIGGLGKGHLV 59
YD+I++G G G A AA+ G S +I + G+ G G
Sbjct: 1 YDLIIVGAGILGLAHAYAAARRGLSVTVIERSSRAQGASVRNFGQVW---PTGQAPGPAW 57
Query: 60 REIDALDGLMGRVADAAGIQFR 81
+ +A AGI R
Sbjct: 58 DRARRSREIWLELAAKAGIWVR 79
>gnl|CDD|179352 PRK01911, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 292
Score = 28.0 bits (63), Expect = 8.4
Identities = 22/98 (22%), Positives = 37/98 (37%), Gaps = 13/98 (13%)
Query: 90 AVRGPRTQADRELYRLAMQREILSQENLDV-IQGEVAGFNTEKNIISSIV--MQDNSMIR 146
A+ G Q Y + + L + +V I+ + F + DN +
Sbjct: 4 AIFGQTYQESASPYIQEL-FDELEERGAEVLIEEKFLDFLKQDLKFHPSYDTFSDNEELD 62
Query: 147 CSTVVLTT----GTFLRGVIHIGKLKIP-----AGRMG 175
S ++ + GTFLR ++G IP GR+G
Sbjct: 63 GSADMVISIGGDGTFLRTATYVGNSNIPILGINTGRLG 100
>gnl|CDD|152330 pfam11894, DUF3414, Protein of unknown function (DUF3414). This
family of proteins are functionally uncharacterized. This
protein is found in eukaryotes. Proteins in this family
are typically between 764 to 2011 amino acids in length.
This protein has a conserved LLG sequence motif.
Length = 1611
Score = 27.7 bits (62), Expect = 8.6
Identities = 12/54 (22%), Positives = 23/54 (42%)
Query: 453 LGCIGERRQKRFAKYIQEYNFLRSLLKSLVLTSKNLSSTSISFKQDGKTRTAYE 506
L + R+ + + + N+L L+ SL T + L + + TA+E
Sbjct: 1412 LVHLDSRKDNFILESLSKSNYLSLLVDSLKATDEALQAALTPLPELLYELTAFE 1465
>gnl|CDD|162677 TIGR02061, aprA, adenosine phosphosulphate reductase, alpha
subunit. During dissimilatory sulfate reduction or
sulfur oxidation, adenylylsulfate (APS) reductase
catalyzes reversibly the two-electron reduction of APS
to sulfite and AMP. Found in several bacterial lineages
and in Archaeoglobales, APS reductase is a heterodimer
composed of an alpha subunit containing a noncovalently
bound FAD, and a beta subunit containing two [4Fe-4S]
clusters. Described by this model is the alpha subunit
of APS reductase, sharing common evolutionary origin
with fumarate reductase/succinate dehydrogenase
flavoproteins.
Length = 614
Score = 27.9 bits (62), Expect = 8.9
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 3/36 (8%)
Query: 7 DVIVIGGGHAGCEAAAVA---AKLGASTALITHKTS 39
D++++GGG GC AA A ++ K +
Sbjct: 1 DLLIVGGGMGGCGAAFEAVYWGDKKGLKIVLVEKAN 36
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.319 0.137 0.389
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 10,185,828
Number of extensions: 680911
Number of successful extensions: 1543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1528
Number of HSP's successfully gapped: 163
Length of query: 626
Length of database: 5,994,473
Length adjustment: 99
Effective length of query: 527
Effective length of database: 3,855,281
Effective search space: 2031733087
Effective search space used: 2031733087
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: 60 (26.9 bits)