RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9395
(637 letters)
>gnl|CDD|235362 PRK05192, PRK05192, tRNA uridine 5-carboxymethylaminomethyl
modification enzyme GidA; Validated.
Length = 618
Score = 1112 bits (2879), Expect = 0.0
Identities = 377/622 (60%), Positives = 473/622 (76%), Gaps = 15/622 (2%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
++DVIVVGGGHAG EAAL +ARMG KTLLL+HN+DTIGQMSCNP+IGGI K HLV+EIDA
Sbjct: 4 EYDVIVVGGGHAGCEAALAAARMGAKTLLLTHNLDTIGQMSCNPAIGGIAKGHLVREIDA 63
Query: 66 MGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQEEV 125
+GG M A DK+GIQFR+LN+SKG AVRA RAQ DR LY+ A+R LENQ NL LFQ EV
Sbjct: 64 LGGEMGKAIDKTGIQFRMLNTSKGPAVRALRAQADRKLYRAAMREILENQPNLDLFQGEV 123
Query: 126 DDLIIKTNKILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYSAGRFGDFSTTSLAK 185
+DLI++ +++GVVT+ G++F +K V+LTTGTFL GKIHIG K+YS GR G+ + L++
Sbjct: 124 EDLIVENGRVVGVVTQDGLEFRAKAVVLTTGTFLRGKIHIGEKNYSGGRAGEPPSIGLSE 183
Query: 186 RLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSVLGNINLHPKQLSCFI 245
L+EL GRLKTGTPPRID R+IDFSK+EEQ GD DP P FS + +HP Q+ C+I
Sbjct: 184 SLRELGFELGRLKTGTPPRIDGRSIDFSKLEEQPGD-DPPPPFSFM-TEKIHPPQVPCYI 241
Query: 246 THTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPKKKSHHIFLEPEGIVI 305
T+TNE+TH IIR SP++SG IE +GPRYCPSIEDK+ RF K H IFLEPEG+
Sbjct: 242 TYTNEETHEIIRENLHRSPMYSGVIEGVGPRYCPSIEDKIVRFADKDRHQIFLEPEGLDT 301
Query: 306 NEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFNPCNLKSSLETKQIHG 365
NE YPNGISTSLP + Q+E+++SI G++NA I+RPGYAIEYDY +P LK +LETK+I G
Sbjct: 302 NEVYPNGISTSLPEDVQLEMLRSIPGLENAEILRPGYAIEYDYVDPRQLKPTLETKKIKG 361
Query: 366 LFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITKGIQE 425
LFFAGQINGTTGYEEAA+QGL+AG+NAAL Q +P+I R +AY+GVL+DDL+TKG +E
Sbjct: 362 LFFAGQINGTTGYEEAAAQGLIAGINAALKVQ-GEPFILKRSEAYIGVLIDDLVTKGTKE 420
Query: 426 PYRMFTSRAEYRLNLREDNADLRLTEIGWKLGCVSYKQWKIFEKKREIITKELQRLKDTW 485
PYRMFTSRAEYRL LREDNADLRLTE G++LG V ++W FE+K+E I +E++RLK T
Sbjct: 421 PYRMFTSRAEYRLLLREDNADLRLTEKGYELGLVDDERWARFEEKKEAIEEEIERLKSTR 480
Query: 486 INPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGINGKNLYNTEIYQEDI 545
+ P LN + G +K E SL +LL P + Y L L ++
Sbjct: 481 VTPDELN-----ELGGDPLKREVSLLDLLRRPEITYEDLAKLDPEL-------ADLDPEV 528
Query: 546 KKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLNKYKPETI 605
+Q++I+++YEGYI RQ E+EK K EN K+P ++DY I LS EAR+KLNK +PETI
Sbjct: 529 AEQVEIEIKYEGYIERQQEEIEKLKRLENKKIPEDIDYDAISGLSNEAREKLNKIRPETI 588
Query: 606 GQASRISGVTPAALTLLLIYLK 627
GQASRISGVTPA +++LL+YLK
Sbjct: 589 GQASRISGVTPADISILLVYLK 610
>gnl|CDD|223522 COG0445, GidA, Flavin-dependent tRNA uridine
5-carboxymethylaminomethyl modification enzyme GidA
[Cell cycle control, cell division, chromosome
partitioning].
Length = 621
Score = 994 bits (2572), Expect = 0.0
Identities = 374/631 (59%), Positives = 480/631 (76%), Gaps = 12/631 (1%)
Query: 3 FKSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKE 62
++DVIV+GGGHAG EAAL +ARMG KTLLL+ N+DTIG+MSCNP+IGG GK HLV+E
Sbjct: 1 MPKEYDVIVIGGGHAGVEAALAAARMGAKTLLLTLNLDTIGEMSCNPAIGGPGKGHLVRE 60
Query: 63 IDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQ 122
IDA+GG+M A DK+GIQFR+LNSSKG AVRA RAQ D+ LY++A++ LENQ NL+L Q
Sbjct: 61 IDALGGLMGKAADKAGIQFRMLNSSKGPAVRAPRAQADKWLYRRAMKNELENQPNLHLLQ 120
Query: 123 EEVDDLIIKTNK-ILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYSAGRFGDFSTT 181
EV+DLI++ + ++GVVT G +F +K V+LTTGTFL GKIHIG +YSAGR G+ +
Sbjct: 121 GEVEDLIVEEGQRVVGVVTADGPEFHAKAVVLTTGTFLRGKIHIGDTNYSAGRLGEPPSI 180
Query: 182 SLAKRLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSVLGNINLHPKQL 241
L+ RL+EL GRLKTGTPPRID R+IDFSK+EEQ GD +P PVFS HP Q+
Sbjct: 181 GLSDRLRELGFKLGRLKTGTPPRIDARSIDFSKLEEQPGD-EPPPVFSFTTEP--HPPQI 237
Query: 242 SCFITHTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPKKKSHHIFLEPE 301
C+IT+TNEKTH IIR SP++SG+IE +GPRYCPSIEDK+ RF K+ H IFLEPE
Sbjct: 238 PCYITYTNEKTHEIIRDNLHRSPMYSGEIEGVGPRYCPSIEDKIVRFADKERHQIFLEPE 297
Query: 302 GIVINEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFNPCNLKSSLETK 361
G+ +E YPNG+STSLP + Q ++++SI G++NA I+RPGYAIEYDY +P LK +LETK
Sbjct: 298 GLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRPGYAIEYDYVDPRQLKPTLETK 357
Query: 362 QIHGLFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITK 421
+I GLFFAGQINGTTGYEEAA+QGL+AG+NAAL Q ++P+I RD+AY+GVL+DDL+TK
Sbjct: 358 KIKGLFFAGQINGTTGYEEAAAQGLIAGINAALKVQGKEPFILRRDEAYIGVLIDDLVTK 417
Query: 422 GIQEPYRMFTSRAEYRLNLREDNADLRLTEIGWKLGCVSYKQWKIFEKKREIITKELQRL 481
G EPYRMFTSRAEYRL LREDNADLRLTEIG +LG V ++++ F KK+E I +E++RL
Sbjct: 418 GTNEPYRMFTSRAEYRLLLREDNADLRLTEIGRELGLVDDERYERFLKKKENIEEEIERL 477
Query: 482 KDTWINPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGINGKNLYNTEIY 541
K TW+ PS + E + G+ +K SL +LL P ++Y+ L SL
Sbjct: 478 KSTWVTPSEVAK-ELLALGGQPLKRRSSLYDLLRRPEISYDDLISLFP-------LPADL 529
Query: 542 QEDIKKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLNKYK 601
++ +Q++I+++YEGYI RQ ++EK K EN K+P ++DY KI LS EAR+KLNK +
Sbjct: 530 DAEVLEQVEIEIKYEGYIKRQQEQIEKLKRLENTKIPEDIDYDKIPGLSNEAREKLNKIR 589
Query: 602 PETIGQASRISGVTPAALTLLLIYLKSGFLK 632
P TIGQASRISGVTPA +++LL+YLK G K
Sbjct: 590 PLTIGQASRISGVTPADISILLVYLKKGKNK 620
>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) [Protein synthesis, tRNA and rRNA base
modification].
Length = 617
Score = 886 bits (2291), Expect = 0.0
Identities = 371/622 (59%), Positives = 475/622 (76%), Gaps = 9/622 (1%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAM 66
FDVIV+GGGHAG EAAL +ARMG KTLLL+ N+DTIG+ SCNP+IGG K LVKEIDA+
Sbjct: 1 FDVIVIGGGHAGCEAALAAARMGAKTLLLTLNLDTIGKCSCNPAIGGPAKGILVKEIDAL 60
Query: 67 GGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQEEVD 126
GG+M A DK+G+QFR+LNSSKG AVRATRAQ+D++LY++A+R LENQ NL LFQ EV+
Sbjct: 61 GGLMGKAADKAGLQFRVLNSSKGPAVRATRAQIDKVLYRKAMRNALENQPNLSLFQGEVE 120
Query: 127 DLIIKTN-KILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYSAGRFGDFSTTSLAK 185
DLI++ N +I GVVT+ G+KF +K VI+TTGTFL GKIHIG KSYSAGR G+ + L+
Sbjct: 121 DLILEDNDEIKGVVTQDGLKFRAKAVIITTGTFLRGKIHIGDKSYSAGRAGEQPSIGLST 180
Query: 186 RLKELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSVLGNINLHPKQLSCFI 245
L+EL GRLKTGTPPRIDKR+IDFSK+E Q GD +P P FS + L +QL C++
Sbjct: 181 TLRELGFKVGRLKTGTPPRIDKRSIDFSKLEVQHGD-NPPPAFSFMNKNFLPLQQLPCYL 239
Query: 246 THTNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPKKKSHHIFLEPEGIVI 305
THTN KTH++IRS SP++SG IE GPRYCPSIEDKV RF K+ H IFLEPEG+
Sbjct: 240 THTNPKTHDLIRSNLHRSPMYSGVIEGNGPRYCPSIEDKVVRFADKERHQIFLEPEGLNS 299
Query: 306 NEYYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFNPCNLKSSLETKQIHG 365
+E YPNG+STSLP + Q+++V+SI G++NA I+RPGYAIEYD+F+P LK +LETK I G
Sbjct: 300 DEIYPNGLSTSLPEDVQLQIVRSIPGLENAEILRPGYAIEYDFFDPRQLKPTLETKLIQG 359
Query: 366 LFFAGQINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITKGIQE 425
LFFAGQINGTTGYEEAA+QGL+AG+NAAL Q+++P+I R +AY+GVL+DDL+TKG +E
Sbjct: 360 LFFAGQINGTTGYEEAAAQGLMAGINAALKLQNKEPFILKRSEAYIGVLIDDLVTKGTKE 419
Query: 426 PYRMFTSRAEYRLNLREDNADLRLTEIGWKLGCVSYKQWKIFEKKREIITKELQRLKDTW 485
PYRMFTSRAEYRL LREDNAD RLTEIG +LG + +++ F KK+E I +E+QRLK TW
Sbjct: 420 PYRMFTSRAEYRLLLREDNADFRLTEIGRELGLIDDERYARFLKKKENIEEEIQRLKSTW 479
Query: 486 INPSILNTGESERVLGKRIKHEYSLSNLLTWPNVNYNTLTSLKGINGKNLYNTEIYQEDI 545
+ PS E + L +K E S +LL P +N LT L E++
Sbjct: 480 LTPSKEVKEELKNHLQSPLKREASGEDLLRRPEMNLEKLTKL-------TPFLPALDEEV 532
Query: 546 KKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLNKYKPETI 605
+Q++IQ++YEGYI +Q +E++K EN+K+P DY K+ LS EAR+KL+K++P +I
Sbjct: 533 LEQVEIQIKYEGYIKKQQDEIKKLDRLENVKIPATFDYRKVPGLSTEAREKLSKFRPLSI 592
Query: 606 GQASRISGVTPAALTLLLIYLK 627
GQASRISG+TPA +++LL+YLK
Sbjct: 593 GQASRISGITPADISILLVYLK 614
>gnl|CDD|216319 pfam01134, GIDA, Glucose inhibited division protein A.
Length = 391
Score = 640 bits (1654), Expect = 0.0
Identities = 242/393 (61%), Positives = 295/393 (75%), Gaps = 2/393 (0%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAMG 67
DVIV+GGGHAG EAAL +ARMG K LL++HN DTI ++SCNPSIGGI K HLV+EIDA+G
Sbjct: 1 DVIVIGGGHAGCEAALAAARMGAKVLLITHNTDTIAELSCNPSIGGIAKGHLVREIDALG 60
Query: 68 GIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQEEVDD 127
G+M A DK+GIQFR+LN+SKG AVRA RAQVDR LY + + LEN NL L Q EV D
Sbjct: 61 GLMGKAADKTGIQFRMLNTSKGPAVRALRAQVDRDLYSKEMTETLENHPNLTLIQGEVTD 120
Query: 128 LIIKTNKILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYSAGRFGDFSTTSLAKRL 187
LI + K+ GVVT+ G ++ +K V+L TGTFLNGKIHIGLK Y AGR G+ ++ L++ L
Sbjct: 121 LIPENGKVKGVVTEDGEEYKAKAVVLATGTFLNGKIHIGLKCYPAGRLGELTSEGLSESL 180
Query: 188 KELQLSHGRLKTGTPPRIDKRTIDFSKMEEQIGDFDPVPVFSVLGNINLHPKQLSCFITH 247
KEL GR KTGTPPRIDK +IDFSK+EEQ GD P P FS L N ++ +Q CF+T+
Sbjct: 181 KELGFELGRFKTGTPPRIDKDSIDFSKLEEQPGD-KPGPPFSYL-NCPMNKEQYPCFLTY 238
Query: 248 TNEKTHNIIRSEFKNSPIFSGKIESIGPRYCPSIEDKVYRFPKKKSHHIFLEPEGIVINE 307
TNE TH IIR SP+F G IE IGPRYCPSIEDK RF K H +FLEPEG+ +E
Sbjct: 239 TNEATHEIIRDNLHRSPMFEGCIEGIGPRYCPSIEDKPVRFADKPYHQVFLEPEGLDTDE 298
Query: 308 YYPNGISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFNPCNLKSSLETKQIHGLF 367
YY G STSLP + Q ++++I G++NA I+RPGYAIEYDY +P L +LETK+I GLF
Sbjct: 299 YYLVGFSTSLPEDVQKRVLRTIPGLENAEIVRPGYAIEYDYIDPPQLLPTLETKKIPGLF 358
Query: 368 FAGQINGTTGYEEAASQGLLAGLNAALFSQDRD 400
FAGQINGT GYEEAA+QGLLAG+NAA + ++
Sbjct: 359 FAGQINGTEGYEEAAAQGLLAGINAARKALGKE 391
>gnl|CDD|206103 pfam13932, GIDA_assoc_3, GidA associated domain 3. The GidA
associated domain 3 is a motif that has been identified
at the C-terminus of protein GidA. It consists of 4
helices, the last three being rather short and forming
small bundle at the top end of the first longer one. It
is here named helical domain 3 because in GidA it is
preceded by two other C-terminal helical domain (based
on crystal structures). GidA is an tRNA modification
enzyme found in bacteria and mitochondrial. Based on
mutational analysis this domain has been suggested to be
implicated in binding of the D-stem of tRNA and to be
responsible for the interaction with protein MnmE.
Structures of GidA in complex with either tRNA or MnmE
are missing. Reported to bind to Pfam family MnmE,
pfam12631.
Length = 72
Score = 112 bits (282), Expect = 5e-30
Identities = 42/70 (60%), Positives = 55/70 (78%)
Query: 555 YEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLNKYKPETIGQASRISGV 614
YEGYI RQ ++EK K EN ++P ++DY +I LS EAR+KL K +PETIGQASRISGV
Sbjct: 3 YEGYIERQQQQIEKAKRLENKRIPEDIDYARISGLSNEAREKLAKIRPETIGQASRISGV 62
Query: 615 TPAALTLLLI 624
TPA +++LL+
Sbjct: 63 TPADISVLLV 72
>gnl|CDD|224127 COG1206, Gid, NAD(FAD)-utilizing enzyme possibly involved in
translation [Translation, ribosomal structure and
biogenesis].
Length = 439
Score = 77.4 bits (191), Expect = 5e-15
Identities = 44/112 (39%), Positives = 61/112 (54%), Gaps = 2/112 (1%)
Query: 312 GISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN-PCNLKSSLETKQIHGLFFAG 370
G T L + Q + + I G++NA +R G + N P L +L+ K+ LFFAG
Sbjct: 282 GFQTHLKWGEQKRVFRMIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAG 341
Query: 371 QINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITKG 422
QI G GY E+A+ GLLAG+NAA + +P IP A LG LV+ + G
Sbjct: 342 QITGVEGYVESAASGLLAGINAARLALGEEPLIPPPTTA-LGALVNYITGAG 392
Score = 40.8 bits (96), Expect = 0.002
Identities = 33/134 (24%), Positives = 58/134 (43%), Gaps = 27/134 (20%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLL---------SHNIDTIGQMSCNPSIGGIGKSHL 59
+ V+G G AG+EAA A+ G +L +H D ++ C+ S+ ++
Sbjct: 6 INVIGAGLAGSEAAWQIAKRGVPVILYEMRPVKGTPAHKTDNFAELVCSNSLRSDALTNA 65
Query: 60 V----KEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRA-QVDRILYKQAIRFYLEN 114
V E+ +G + I+ ++ V A A VDR + QA+ LEN
Sbjct: 66 VGLLKAEMRLLGSL-------------IIEAADKHRVPAGGALAVDRDGFSQAVTEKLEN 112
Query: 115 QLNLYLFQEEVDDL 128
+ + +EEV ++
Sbjct: 113 HPLIEVIREEVTEI 126
>gnl|CDD|235416 PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid;
Reviewed.
Length = 436
Score = 72.1 bits (178), Expect = 2e-13
Identities = 42/105 (40%), Positives = 59/105 (56%), Gaps = 2/105 (1%)
Query: 312 GISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN-PCNLKSSLETKQIHGLFFAG 370
G T L + Q + + I G++NA +R G + N P L +L+ K+ LFFAG
Sbjct: 278 GFQTKLKWGEQKRVFRMIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAG 337
Query: 371 QINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLV 415
QI G GY E+A+ GLLAG+NAA + ++P IP A LG L+
Sbjct: 338 QITGVEGYVESAASGLLAGINAARLALGKEPVIPPPTTA-LGALL 381
Score = 41.7 bits (99), Expect = 0.001
Identities = 34/143 (23%), Positives = 61/143 (42%), Gaps = 32/143 (22%)
Query: 9 VIVVGGGHAGTEAALVSARMG-------QKTLLLS--HNIDTIGQMSCNPSIGGIGKSH- 58
V V+G G AG+EAA A+ G + + + H+ D ++ C+ S ++
Sbjct: 5 VNVIGAGLAGSEAAWQLAKRGVPVELYEMRPVKKTPAHHTDGFAELVCSNSFRSDSLTNA 64
Query: 59 ---LVKEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRA-QVDRILYKQAIRFYLEN 114
L +E+ +G + I+ ++ V A A VDR + + + LEN
Sbjct: 65 VGLLKEEMRRLGSL-------------IMEAADAHRVPAGGALAVDREGFSEYVTEALEN 111
Query: 115 QLNLYLFQEEVDDL-----IIKT 132
+ + +EEV ++ II T
Sbjct: 112 HPLITVIREEVTEIPEDITIIAT 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 [Protein
synthesis, tRNA and rRNA base modification].
Length = 433
Score = 63.0 bits (153), Expect = 2e-10
Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 2/111 (1%)
Query: 312 GISTSLPFEAQIELVQSIDGMKNANIIRPGYAIEYDYFN-PCNLKSSLETKQIHGLFFAG 370
G T+L + Q + + I G++NA +R G + N P L +SL K LFFAG
Sbjct: 277 GFQTNLRWGEQKRVFRLIPGLENAEFVRMGVMHRNTFINSPQLLTASLHFKDRQTLFFAG 336
Query: 371 QINGTTGYEEAASQGLLAGLNAALFSQDRDPWIPGRDQAYLGVLVDDLITK 421
Q+ G GY + + G LAG+NAA + + +G L + + T
Sbjct: 337 QLTGVEGYVASTAGGWLAGINAARLALGEPLLTLPAETM-MGALFNYISTA 386
Score = 43.0 bits (101), Expect = 4e-04
Identities = 34/130 (26%), Positives = 65/130 (50%), Gaps = 19/130 (14%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLL---------SHNIDTIGQMSCNPSIGGIGKSHL 59
V V+GGG AG+EAA A+ G +L +H+ + + ++ C+ S+G
Sbjct: 3 VHVIGGGLAGSEAAWQLAQAGVPVILYEMRPEKLTPAHHTEDLAELVCSNSLGA------ 56
Query: 60 VKEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRA-QVDRILYKQAIRFYLENQLNL 118
K +D G++ T+ + I+ ++ AV A A VDR ++ +++ + + N+
Sbjct: 57 -KALDRAAGLL--KTEMRQLSSLIITAADRHAVPAGGALAVDRGIFSRSLTEQVASHPNV 113
Query: 119 YLFQEEVDDL 128
L +EEV ++
Sbjct: 114 TLIREEVTEI 123
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 50.9 bits (122), Expect = 1e-06
Identities = 31/163 (19%), Positives = 57/163 (34%), Gaps = 28/163 (17%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLL-------SHN-----IDTIGQMSCNPSIGG 53
++DV++VG G AG+ AA A+ G L+L + + P
Sbjct: 3 EYDVVIVGAGPAGSSAARRLAKAGLDVLVLEKGSEPGAKPCCGGGLSPRALEELIP---- 58
Query: 54 IGKSHLVKEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLE 113
+ +++ G + +K I G RA+ D+ L ++A E
Sbjct: 59 DFDEEIERKVT--GARIYFPGEKVAI-----EVPVGEGYIVDRAKFDKWLAERAEEAGAE 111
Query: 114 NQLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTG 156
V +I + + ++ V + +K VI G
Sbjct: 112 -----LYPGTRVTGVIREDDGVVVGVRAGDDEVRAKVVIDADG 149
>gnl|CDD|221798 pfam12831, FAD_oxidored, FAD dependent oxidoreductase. This family
of proteins contains FAD dependent oxidoreductases and
related proteins.
Length = 415
Score = 50.3 bits (121), Expect = 2e-06
Identities = 42/165 (25%), Positives = 61/165 (36%), Gaps = 38/165 (23%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMS-------------CNPSIGGI 54
DV+VVGGG AG AA+ +AR+G K LL+ +G M+ IGGI
Sbjct: 1 DVVVVGGGPAGVAAAIAAARLGAKVLLVERR-GWLGGMATSGLVGTDDGNYDRGQVIGGI 59
Query: 55 GKSHLVKEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLEN 114
+ ++ + A GG + V +D +L E
Sbjct: 60 AR-EFLRRLRARGGP----LGNRTSGPWPFDPEVAKLV------LDEML--------AEA 100
Query: 115 QLNLYLFQEEVDDLIIKTNKILGVV--TKIGIKFFS-KTVILTTG 156
+ + L V ++K +I GV K G K I TG
Sbjct: 101 GVTVLLHTRVVG--VVKEGRITGVTVENKSGRLTIRAKVFIDATG 143
>gnl|CDD|219686 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 = 283
Score = 48.9 bits (117), Expect = 3e-06
Identities = 30/149 (20%), Positives = 52/149 (34%), Gaps = 39/149 (26%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAMG 67
DV+++GGG AG AA+ AR+G K L I+ G N G + K L+
Sbjct: 1 DVVIIGGGPAGLAAAIRLARLGLKVAL----IEREGGTCYNR--GCLPKKLLL------- 47
Query: 68 GIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQEEVDD 127
++G + A + + + + L EV D
Sbjct: 48 -----------------EVAEGLELAIGLALPEEVYKEFGVEVLLG---------TEVVD 81
Query: 128 LIIKTNKILGVVTKIGIKFFSKTVILTTG 156
+ ++ + G + +I+ TG
Sbjct: 82 IDRGEKTVVLKDVETGREITYDKLIIATG 110
>gnl|CDD|235412 PRK05329, PRK05329, anaerobic glycerol-3-phosphate dehydrogenase
subunit B; Validated.
Length = 422
Score = 43.7 bits (104), Expect = 2e-04
Identities = 17/41 (41%), Positives = 25/41 (60%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMS 46
KFDV+V+GGG AG AAL +A G++ L++ + S
Sbjct: 2 KFDVLVIGGGLAGLTAALAAAEAGKRVALVAKGQGALHFSS 42
>gnl|CDD|223981 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase,
flavoprotein subunit [Energy production and
conversion].
Length = 562
Score = 43.1 bits (102), Expect = 3e-04
Identities = 26/66 (39%), Positives = 31/66 (46%), Gaps = 17/66 (25%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
+FDV+V+GGG AG AA+ +A G K LLS P G H V A
Sbjct: 6 EFDVVVIGGGGAGLRAAIEAAEAGLKVALLSK----------APPKRG----HTVA---A 48
Query: 66 MGGIMA 71
GGI A
Sbjct: 49 QGGINA 54
>gnl|CDD|224992 COG2081, COG2081, Predicted flavoproteins [General function
prediction only].
Length = 408
Score = 42.6 bits (101), Expect = 5e-04
Identities = 20/50 (40%), Positives = 31/50 (62%), Gaps = 8/50 (16%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQ---MS----CN 48
+FDVI++GGG AG AA+ +A+ G++ LL+ +G+ MS CN
Sbjct: 3 RFDVIIIGGGPAGLMAAISAAKAGRRVLLIDKG-PKLGRKILMSGGGRCN 51
Score = 29.5 bits (67), Expect = 5.5
Identities = 16/43 (37%), Positives = 27/43 (62%), Gaps = 6/43 (13%)
Query: 357 SLETKQIHGLFFAGQ---INGTTG---YEEAASQGLLAGLNAA 393
++E+K++ GL+FAG+ + G TG ++ A + G AG AA
Sbjct: 362 TMESKKVPGLYFAGEVLDVTGWTGGYNFQWAWASGWAAGQGAA 404
>gnl|CDD|226160 COG3634, AhpF, Alkyl hydroperoxide reductase, large subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 520
Score = 42.0 bits (99), Expect = 7e-04
Identities = 25/88 (28%), Positives = 43/88 (48%), Gaps = 13/88 (14%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNI-----DTIG-------QMSCNPSI 51
K +DV+VVGGG AG AA+ +AR G +T L++ DT+G + P +
Sbjct: 209 KDAYDVLVVGGGPAGAAAAIYAARKGIRTGLVAERFGGQVLDTMGIENFISVPETEGPKL 268
Query: 52 GGIGKSHLVK-EIDAMGGIMAIATDKSG 78
++H+ + ++D M A + +
Sbjct: 269 AAALEAHVKQYDVDVMNLQRASKLEPAA 296
Score = 32.0 bits (73), Expect = 1.0
Identities = 13/22 (59%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 2 LFKSKFDVIVVGGGHAGTEAAL 23
LFK K V V+GGG++G EAA+
Sbjct: 351 LFKGK-RVAVIGGGNSGVEAAI 371
>gnl|CDD|237942 PRK15317, PRK15317, alkyl hydroperoxide reductase subunit F;
Provisional.
Length = 517
Score = 42.1 bits (100), Expect = 9e-04
Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 5/45 (11%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNI-----DTIG 43
K +DV+VVGGG AG AA+ +AR G +T +++ DT+G
Sbjct: 209 KDPYDVLVVGGGPAGAAAAIYAARKGIRTGIVAERFGGQVLDTMG 253
Score = 34.0 bits (79), Expect = 0.24
Identities = 13/22 (59%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 2 LFKSKFDVIVVGGGHAGTEAAL 23
LFK K V V+GGG++G EAA+
Sbjct: 348 LFKGK-RVAVIGGGNSGVEAAI 368
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 41.7 bits (98), Expect = 0.001
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIG 43
+DV+V+G G G AA + AR G K +L N D +G
Sbjct: 2 PMYDVVVIGAGLNGLAAAALLARAGLKVTVLEKN-DRVG 39
>gnl|CDD|233693 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 [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 295
Score = 40.8 bits (96), Expect = 0.001
Identities = 37/163 (22%), Positives = 55/163 (33%), Gaps = 31/163 (19%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAM 66
+DV+VVG G AG AA A G + LLL C G + ++E+D
Sbjct: 1 YDVVVVGAGPAGASAAYRLADKGLRVLLLEKK-SFPRYKPCG---GALSPRA-LEELDLP 55
Query: 67 GGIMAIATDKSGIQFRILNSSK---------GAAVRATRAQVDRILYKQAIR----FYLE 113
G I G +F N + R D L ++A L
Sbjct: 56 G--ELIVNLVRGARFFSPNGDSVEIPIETELAYVID--RDAFDEQLAERAQEAGAELRLG 111
Query: 114 NQLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTG 156
V D+ I ++++ +V +K VI G
Sbjct: 112 T---------RVLDVEIHDDRVVVIVRGSEGTVTAKIVIGADG 145
>gnl|CDD|234119 TIGR03140, AhpF, alkyl hydroperoxide reductase subunit F. 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
[Cellular processes, Detoxification, Cellular processes,
Adaptations to atypical conditions].
Length = 515
Score = 40.8 bits (96), Expect = 0.002
Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 5/45 (11%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNI-----DTIG 43
+DV+VVGGG AG AA+ +AR G +T +++ I DT+G
Sbjct: 210 LDPYDVLVVGGGPAGAAAAIYAARKGLRTAMVAERIGGQVKDTVG 254
Score = 31.9 bits (73), Expect = 1.2
Identities = 13/22 (59%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 2 LFKSKFDVIVVGGGHAGTEAAL 23
FK K DV V+GGG++G EAA+
Sbjct: 349 FFKGK-DVAVIGGGNSGIEAAI 369
>gnl|CDD|182273 PRK10157, PRK10157, putative oxidoreductase FixC; Provisional.
Length = 428
Score = 40.3 bits (94), Expect = 0.002
Identities = 41/162 (25%), Positives = 68/162 (41%), Gaps = 18/162 (11%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAM 66
FD I+VG G AG+ AALV AR G + L++ + + H++
Sbjct: 6 FDAIIVGAGLAGSVAALVLAREGAQVLVIERGNSAGAKNVTGGRLYAHSLEHIIPGFADS 65
Query: 67 GGI--------MAIATDKSGIQFRILNSSKGAAVRAT----RAQVDRILYKQAIRFYLEN 114
+ +A T+KS + N + + + + R++ D L +QA E
Sbjct: 66 APVERLITHEKLAFMTEKSAMTMDYCNGDETSPSQRSYSVLRSKFDAWLMEQA-----EE 120
Query: 115 QLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTG 156
+ VD+L+ + K++GV G +KTVIL G
Sbjct: 121 AGAQLITGIRVDNLVQRDGKVVGVEAD-GDVIEAKTVILADG 161
>gnl|CDD|237512 PRK13800, PRK13800, putative oxidoreductase/HEAT
repeat-containing protein; Provisional.
Length = 897
Score = 40.2 bits (94), Expect = 0.004
Identities = 17/28 (60%), Positives = 20/28 (71%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV+V+GGG AGT AAL +A G LLL
Sbjct: 15 DVLVIGGGTAGTMAALTAAEHGANVLLL 42
>gnl|CDD|217590 pfam03486, HI0933_like, HI0933-like protein.
Length = 405
Score = 39.9 bits (94), Expect = 0.004
Identities = 15/32 (46%), Positives = 23/32 (71%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHN 38
+DVIV+GGG AG AA+ +A+ G++ LL+
Sbjct: 1 YDVIVIGGGAAGLMAAISAAKRGRRVLLIDKG 32
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 39.5 bits (93), Expect = 0.005
Identities = 31/162 (19%), Positives = 63/162 (38%), Gaps = 30/162 (18%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQM-------SCNPSIGGIGKSH 58
++DV+V+G G AG AA+ +A++G K L ++ ++ C PS + +
Sbjct: 4 EYDVVVIGAGPAGYVAAIRAAQLGLKVAL----VEKGERLGGTCLNVGCIPSKALLHAAE 59
Query: 59 LVKEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNL 118
+++E I+ + I F + A + +V R+L +E L
Sbjct: 60 VIEEARHAAKEYGISAEVPKIDF--------EKLLARKDKVVRLL-----TGGVEGLLKK 106
Query: 119 Y---LFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTGT 157
+ + E + V + + +I+ TG+
Sbjct: 107 NGVDVIRGEA---RFVDPHTVEVTGEDKETITADNIIIATGS 145
>gnl|CDD|216176 pfam00890, FAD_binding_2, FAD binding domain. This family
includes members that bind FAD. This family includes
the flavoprotein subunits from succinate and fumarate
dehydrogenase, aspartate oxidase and the alpha subunit
of adenylylsulphate reductase.
Length = 401
Score = 39.2 bits (92), Expect = 0.006
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLS 36
DV+V+G G AG AAL +A G K ++
Sbjct: 1 DVVVIGSGLAGLAAALEAAEAGLKVAVVE 29
>gnl|CDD|181057 PRK07608, PRK07608, ubiquinone biosynthesis hydroxylase family
protein; Provisional.
Length = 388
Score = 38.8 bits (91), Expect = 0.008
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKTLLLSH 37
KFDV+VVGGG G AL A+ G + LL+
Sbjct: 4 MKFDVVVVGGGLVGASLALALAQSGLRVALLAP 36
>gnl|CDD|145231 pfam01946, Thi4, Thi4 family. This family includes a putative
thiamine biosynthetic enzyme.
Length = 229
Score = 37.8 bits (88), Expect = 0.010
Identities = 34/136 (25%), Positives = 59/136 (43%), Gaps = 23/136 (16%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLV--KEIDA 65
DV++VG G +G AA A+ G K ++ ++ G GG+ S +V K D
Sbjct: 19 DVVIVGAGPSGLTAAYYLAKKGLKVAIIERSLSPGGGA----WGGGMLFSAMVVRKPADE 74
Query: 66 MGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQE-E 124
I + G + ++++ + A++A Q + +F
Sbjct: 75 FLDEFGIRYEDEGDYVVVADAAEFTSTLASKAL----------------QPGVKIFNATS 118
Query: 125 VDDLIIKTNKILGVVT 140
V+DLII+ N++ GVVT
Sbjct: 119 VEDLIIRDNRVAGVVT 134
>gnl|CDD|237225 PRK12843, PRK12843, putative FAD-binding dehydrogenase; Reviewed.
Length = 578
Score = 38.6 bits (90), Expect = 0.010
Identities = 17/29 (58%), Positives = 20/29 (68%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLL 35
FDVIV+G G AG AAL +A G K LL+
Sbjct: 17 FDVIVIGAGAAGMSAALFAAIAGLKVLLV 45
>gnl|CDD|182194 PRK10015, PRK10015, oxidoreductase; Provisional.
Length = 429
Score = 38.4 bits (89), Expect = 0.011
Identities = 46/150 (30%), Positives = 66/150 (44%), Gaps = 27/150 (18%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
KFD IVVG G AG+ AALV AR G L++ D+ G C GG +H ++ I
Sbjct: 5 KFDAIVVGAGVAGSVAALVMARAGLDVLVIERG-DSAG---CKNMTGGRLYAHTLEAI-- 58
Query: 66 MGGIMAIA-----TDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYL 120
+ G A A + I F L + R Q D + + A L N+L+ +L
Sbjct: 59 IPGFAASAPVERKVTREKISF--LTEESAVTLDFHREQPD--VPQHASYTVLRNRLDPWL 114
Query: 121 FQE------------EVDDLIIKTNKILGV 138
++ VD L+ + NK+ GV
Sbjct: 115 MEQAEQAGAQFIPGVRVDALVREGNKVTGV 144
>gnl|CDD|213807 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 [Energy
metabolism, Anaerobic].
Length = 419
Score = 38.1 bits (89), Expect = 0.012
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLS 36
FDVI++GGG AG AL A G+K +++
Sbjct: 1 FDVIIIGGGLAGLSCALRLAEAGKKCAIIA 30
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 38.2 bits (89), Expect = 0.012
Identities = 20/46 (43%), Positives = 23/46 (50%), Gaps = 10/46 (21%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGG 53
V+V+GGG AG AAL A MG K L+ PSIGG
Sbjct: 126 SVLVIGGGVAGITAALELADMGFKVYLVEK----------EPSIGG 161
>gnl|CDD|233018 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 [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridine
nucleotides].
Length = 488
Score = 38.2 bits (89), Expect = 0.013
Identities = 46/200 (23%), Positives = 72/200 (36%), Gaps = 58/200 (29%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSI---GGIG------ 55
DV+V+G G AG AAL A G+ +L + ++ S GGI
Sbjct: 1 HSCDVVVIGSGAAGLSAALALADQGRVIVL------SKAPVTEGNSFYAQGGIAAVLAET 54
Query: 56 ---KSHLVKEIDAMGGI--------------MAIAT--------DKSGIQFRILNSSKGA 90
SH+ + A GI A+ D+ Q + +G
Sbjct: 55 DSIDSHVEDTLAAGAGICDREAVEFVVSDARSAVQWLVDQGVLFDRH-EQGSYALTREGG 113
Query: 91 --------AVRATRAQVDRILYKQAIRFYLENQLNLYLF-QEEVDDLIIKTNKILGVVTK 141
A AT +V L K+A N N+ + E DL+I+T +++GV
Sbjct: 114 HSYRRILHAADATGREVITTLVKKA-----LNHPNIRIIEGENALDLLIETGRVVGVWVW 168
Query: 142 I--GIKFF-SKTVILTTGTF 158
++ + V+L TG
Sbjct: 169 NRETVETCHADAVVLATGGA 188
>gnl|CDD|236214 PRK08274, PRK08274, tricarballylate dehydrogenase; Validated.
Length = 466
Score = 37.9 bits (89), Expect = 0.014
Identities = 15/31 (48%), Positives = 19/31 (61%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
S DV+V+GGG+A AAL + G LLL
Sbjct: 3 SMVDVLVIGGGNAALCAALAAREAGASVLLL 33
>gnl|CDD|234436 TIGR03997, mycofact_OYE_2, mycofactocin system FadH/OYE family
oxidoreductase 2. The yeast protein called old yellow
enzyme and FadH from Escherichia coli (2,4-dienoyl CoA
reductase) are enzymes with 4Fe-4S, FMN, and FAD
prosthetic groups, and interact with NADPH as well as
substrate. Members of this related protein family occur
in the vicinity of the putative mycofactocin
biosynthesis operon in a number of Actinobacteria such
as Frankia sp. and Rhodococcus sp., in Pelotomaculum
thermopropionicum SI (Firmicutes), and in Geobacter
uraniireducens Rf4 (Deltaproteobacteria). The function
of this oxidoreductase is unknown.
Length = 645
Score = 37.7 bits (88), Expect = 0.016
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 7/92 (7%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGK-----SHLVKEI 63
V+VVGGG AG EAA +AR G + L GQ+ + G G+ +L E+
Sbjct: 382 VLVVGGGPAGLEAAATAARRGHRVTLFEREDRLGGQVRLAARLPGRGEFADLIRNLASEL 441
Query: 64 DAMGGIMAIATDKSGIQFRILNSSKGAAVRAT 95
G + + +L A V AT
Sbjct: 442 RRAG--VEVRLGVEADAELVLAEKPDAVVVAT 471
>gnl|CDD|236111 PRK07843, PRK07843, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 557
Score = 37.7 bits (88), Expect = 0.019
Identities = 14/29 (48%), Positives = 20/29 (68%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLL 35
+DV+VVG G AG AAL +A G T+++
Sbjct: 8 YDVVVVGSGAAGMVAALTAAHRGLSTVVV 36
>gnl|CDD|233345 TIGR01292, TRX_reduct, thioredoxin-disulfide reductase. This model
describes thioredoxin-disulfide reductase, a member of
the pyridine nucleotide-disulphide oxidoreductases
(pfam00070) [Energy metabolism, Electron transport].
Length = 299
Score = 36.4 bits (85), Expect = 0.030
Identities = 35/157 (22%), Positives = 59/157 (37%), Gaps = 55/157 (35%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSI-------GGIGKSHLV 60
DVI++G G AG AA+ +AR K LL+ + GQ++ + GI L+
Sbjct: 1 DVIIIGAGPAGLTAAIYAARANLKPLLIEGG-EPGGQLTTTTEVENYPGFPEGISGPELM 59
Query: 61 KEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYL 120
++ + +QA++F E +
Sbjct: 60 EK----------------------------------------MKEQAVKFGAE------I 73
Query: 121 FQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTGT 157
EEV + K+ + V T G ++ +K VI+ TG
Sbjct: 74 IYEEVIK-VDKSGRPFKVYTGDGKEYTAKAVIIATGA 109
Score = 30.3 bits (69), Expect = 2.8
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 2 LFKSKFDVIVVGGGHAGTEAALVSARMGQK 31
FK+K +V VVGGG + E AL R+ +K
Sbjct: 137 FFKNK-EVAVVGGGDSAIEEALYLTRIAKK 165
>gnl|CDD|236102 PRK07804, PRK07804, L-aspartate oxidase; Provisional.
Length = 541
Score = 36.9 bits (86), Expect = 0.033
Identities = 14/29 (48%), Positives = 21/29 (72%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLS 36
DV+VVG G AG AAL + R G++ L+++
Sbjct: 18 DVVVVGSGVAGLTAALAARRAGRRVLVVT 46
>gnl|CDD|188511 TIGR03996, mycofact_OYE_1, mycofactocin system FadH/OYE family
oxidoreductase 1. The yeast protein called old yellow
enzyme and FadH from Escherichia coli (2,4-dienoyl CoA
reductase) are enzymes with 4Fe-4S, FMN, and FAD
prosthetic groups, and interact with NADPH as well as
substrate. Members of this related protein family occur
in the vicinity of the putative mycofactocin
biosynthesis operon in a number of Actinobacteria such
as Frankia sp. and Rhodococcus sp. The function of this
oxidoreductase is unknown.
Length = 633
Score = 36.8 bits (85), Expect = 0.037
Identities = 28/94 (29%), Positives = 42/94 (44%), Gaps = 13/94 (13%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAMG 67
DV+VVGGG AG EAA V A G + L + G + + G G L A+
Sbjct: 374 DVLVVGGGPAGLEAARVLAARGHRVTLAERSAHLGGMLRI--AARGPGLHRLA----ALA 427
Query: 68 GIMAIATDKSGIQFRILNSSKGAAVRATRAQVDR 101
+ + G++ R+ GAA+ ++DR
Sbjct: 428 DWLEAECRRLGVRIRL-----GAAIGV--EELDR 454
>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 [Energy metabolism,
Amino acids and amines].
Length = 380
Score = 36.3 bits (84), Expect = 0.041
Identities = 18/29 (62%), Positives = 20/29 (68%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLL 35
FDVIVVG G G AA A+ G+KTLLL
Sbjct: 1 FDVIVVGAGIMGCFAAYHLAKHGKKTLLL 29
>gnl|CDD|233689 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 ) [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 388
Score = 36.3 bits (84), Expect = 0.046
Identities = 16/36 (44%), Positives = 22/36 (61%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTI 42
+DV V+GGG +G AA AR G +T+LL + I
Sbjct: 1 YDVAVIGGGPSGATAAETLARAGIETILLERALSNI 36
>gnl|CDD|180579 PRK06467, PRK06467, dihydrolipoamide dehydrogenase; Reviewed.
Length = 471
Score = 36.1 bits (84), Expect = 0.048
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLL 34
K V+V+G G AG AA +A +G +T+
Sbjct: 4 KTQVVVLGAGPAGYSAAFRAADLGLETVC 32
>gnl|CDD|225617 COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase
[Amino acid transport and metabolism].
Length = 421
Score = 36.2 bits (84), Expect = 0.050
Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 15/71 (21%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLS------HN----IDTIGQMSCNPSIGGIG 55
FDV ++GGG AG L + G++ +++ H +D +G++ P G
Sbjct: 2 NFDVAIIGGGLAGLTCGLALQQAGKRCAIVNRGQSALHFSSGSLDLLGRL---PD--GQA 56
Query: 56 KSHLVKEIDAM 66
+ + +DA+
Sbjct: 57 VTDIHDGLDAL 67
>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 [Energy
metabolism, Amino acids and amines].
Length = 370
Score = 36.0 bits (83), Expect = 0.052
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQM 45
DV ++GGG GT AA ++ +G +L NID + Q+
Sbjct: 169 DVTIIGGGVVGTNAAKMANGLGATVTILDINIDRLRQL 206
>gnl|CDD|233382 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 [Energy metabolism, Amino acids and amines].
Length = 985
Score = 36.2 bits (84), Expect = 0.065
Identities = 15/28 (53%), Positives = 20/28 (71%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV+VVG G AG AAL +AR G + +L+
Sbjct: 165 DVLVVGAGPAGLAAALAAARAGARVILV 192
>gnl|CDD|181594 PRK08958, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 588
Score = 35.9 bits (83), Expect = 0.065
Identities = 23/63 (36%), Positives = 28/63 (44%), Gaps = 17/63 (26%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAM 66
FD +V+G G AG AAL ++ GQ LLS T +SH V A
Sbjct: 8 FDAVVIGAGGAGMRAALQISQSGQSCALLSKVFPT--------------RSHTVS---AQ 50
Query: 67 GGI 69
GGI
Sbjct: 51 GGI 53
>gnl|CDD|180419 PRK06134, PRK06134, putative FAD-binding dehydrogenase; Reviewed.
Length = 581
Score = 35.9 bits (83), Expect = 0.077
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLL 34
DV+V+G G AG AA+ +A G K ++
Sbjct: 14 DVLVIGSGAAGLSAAVTAAWHGLKVIV 40
>gnl|CDD|223566 COG0492, TrxB, Thioredoxin reductase [Posttranslational
modification, protein turnover, chaperones].
Length = 305
Score = 35.3 bits (82), Expect = 0.080
Identities = 39/167 (23%), Positives = 65/167 (38%), Gaps = 44/167 (26%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
+DVI++GGG AG AA+ +AR G K +L I G+ G + K+ +++
Sbjct: 3 IYDVIIIGGGPAGLTAAIYAARAGLKVVL----ILEGGE-----PGGQLTKTT---DVEN 50
Query: 66 MGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLFQEEV 125
G GI L + +QA +F +E + ++EV
Sbjct: 51 YPGF------PGGILGPEL---------MEQM------KEQAEKFGVE------IVEDEV 83
Query: 126 DDLIIKTNKILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYSA 172
+ + V T G + +K VI+ TG G +G+
Sbjct: 84 EK-VELEGGPFKVKTDKGT-YEAKAVIIATGA---GARKLGVPGEEE 125
>gnl|CDD|180814 PRK07057, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 591
Score = 35.6 bits (82), Expect = 0.085
Identities = 24/66 (36%), Positives = 30/66 (45%), Gaps = 17/66 (25%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
KFDV++VG G +G A+L AR G +LS T +SH V A
Sbjct: 12 KFDVVIVGAGGSGMRASLQLARAGLSVAVLSKVFPT--------------RSHTVA---A 54
Query: 66 MGGIMA 71
GGI A
Sbjct: 55 QGGIGA 60
>gnl|CDD|233368 TIGR01350, lipoamide_DH, dihydrolipoamide dehydrogenase. This
model describes dihydrolipoamide dehydrogenase, a
flavoprotein that acts in a number of ways. It is the
E3 component of dehydrogenase complexes for pyruvate,
2-oxoglutarate, 2-oxoisovalerate, and acetoin. It can
also serve as the L protein of the glycine cleavage
system. This family includes a few members known to
have distinct functions (ferric leghemoglobin reductase
and NADH:ferredoxin oxidoreductase) but that may be
predicted by homology to act as dihydrolipoamide
dehydrogenase as well. The motif GGXCXXXGCXP near the
N-terminus contains a redox-active disulfide.
Length = 460
Score = 35.3 bits (82), Expect = 0.086
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLL 34
+DVIV+GGG G AA+ +A++G K L
Sbjct: 2 YDVIVIGGGPGGYVAAIRAAQLGLKVAL 29
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 35.5 bits (83), Expect = 0.087
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLL 34
+DVIV+G G G AA+ +A++G K +
Sbjct: 5 YDVIVIGAGPGGYVAAIRAAQLGLKVAI 32
>gnl|CDD|235779 PRK06327, PRK06327, dihydrolipoamide dehydrogenase; Validated.
Length = 475
Score = 34.9 bits (81), Expect = 0.11
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGG 53
+FDV+V+G G G AA+ +A++G K I+ P++GG
Sbjct: 4 QFDVVVIGAGPGGYVAAIRAAQLGLKVAC----IEAWKNPKGKPALGG 47
>gnl|CDD|235689 PRK06069, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 577
Score = 35.0 bits (81), Expect = 0.12
Identities = 55/230 (23%), Positives = 80/230 (34%), Gaps = 78/230 (33%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQ---------KTLLL-SHNIDTIGQMSC--NPSIGG 53
K+DV++VG G AG AA+ +A KT + SH++ G + P G
Sbjct: 5 KYDVVIVGSGLAGLRAAVAAAERSGGKLSVAVVSKTQPMRSHSVSAEGGTAAVLYPEKGD 64
Query: 54 IGKSH-------------------LVKEIDAMGGIMAIATDKSGIQF------RILNSSK 88
H V+E D G+ + RI
Sbjct: 65 SFDLHAYDTVKGSDFLADQDAVEVFVREAPE----EIRFLDHWGVPWSRRPDGRISQRPF 120
Query: 89 GAAV--RATRAQVDRI-------LYKQAIRFYLENQLNLYLFQEE-VDDLIIKTNKILGV 138
G R T A D+ LY +A+RF N++ + E V LI++ G
Sbjct: 121 GGMSFPRTTFAA-DKTGFYIMHTLYSRALRFD-----NIHFYDEHFVTSLIVENGVFKG- 173
Query: 139 VTKIGIK------FFSKTVILTTGTFLNGKIHIGLKSYSAGRFGDFSTTS 182
VT I +K F +K I+ TG AGR F+T +
Sbjct: 174 VTAIDLKRGEFKVFQAKAGIIATG--------------GAGRLYGFTTYA 209
>gnl|CDD|236112 PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed.
Length = 466
Score = 34.8 bits (81), Expect = 0.14
Identities = 11/21 (52%), Positives = 18/21 (85%)
Query: 9 VIVVGGGHAGTEAALVSARMG 29
++++GGG G EAALV+A++G
Sbjct: 4 IVIIGGGPGGYEAALVAAQLG 24
>gnl|CDD|223758 COG0686, Ald, Alanine dehydrogenase [Amino acid transport and
metabolism].
Length = 371
Score = 34.6 bits (80), Expect = 0.16
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQM 45
V+V+GGG GT AA ++ +G +L NID + Q+
Sbjct: 170 KVVVLGGGVVGTNAAKIAIGLGADVTILDLNIDRLRQL 207
>gnl|CDD|181262 PRK08163, PRK08163, salicylate hydroxylase; Provisional.
Length = 396
Score = 34.2 bits (79), Expect = 0.18
Identities = 18/37 (48%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLL--SHNIDTIG 43
V++VGGG G AAL AR G K LL + I IG
Sbjct: 7 VLIVGGGIGGLAAALALARQGIKVKLLEQAAEIGEIG 43
>gnl|CDD|236375 PRK09078, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 598
Score = 34.5 bits (80), Expect = 0.19
Identities = 24/66 (36%), Positives = 29/66 (43%), Gaps = 17/66 (25%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
K+DV+VVG G AG A L A G KT ++ T +SH V A
Sbjct: 12 KYDVVVVGAGGAGLRATLGMAEAGLKTACITKVFPT--------------RSHTVA---A 54
Query: 66 MGGIMA 71
GGI A
Sbjct: 55 QGGISA 60
>gnl|CDD|181001 PRK07494, PRK07494, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Provisional.
Length = 388
Score = 34.1 bits (79), Expect = 0.21
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLL 35
D+ V+GGG AG AA+ AR G L+
Sbjct: 8 TDIAVIGGGPAGLAAAIALARAGASVALV 36
>gnl|CDD|131083 TIGR02028, ChlP, geranylgeranyl reductase. This model represents
the reductase which acts reduces the geranylgeranyl
group to the phytyl group in the side chain of
chlorophyll. It is unclear whether the enzyme has a
preference for acting before or after the attachment of
the side chain to chlorophyllide a by chlorophyll
synthase. This clade is restricted to plants and
cyanobacteria to separate it from the homologues which
act in the biosynthesis of bacteriochlorophyll
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 398
Score = 34.1 bits (78), Expect = 0.22
Identities = 19/46 (41%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGI 54
V VVGGG AG AA A G +T LL D + P G I
Sbjct: 3 VAVVGGGPAGASAAETLASAGIQTFLLERKPD-----NAKPCGGAI 43
>gnl|CDD|235241 PRK04176, PRK04176, ribulose-1,5-biphosphate synthetase;
Provisional.
Length = 257
Score = 33.6 bits (78), Expect = 0.22
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 10/49 (20%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGG 53
+ DV +VG G +G AA A+ G K + + S GG
Sbjct: 24 LEVDVAIVGAGPSGLTAAYYLAKAGLKVAVFERKL----------SFGG 62
>gnl|CDD|181507 PRK08626, PRK08626, fumarate reductase flavoprotein subunit;
Provisional.
Length = 657
Score = 34.2 bits (79), Expect = 0.23
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLS 36
D +V+G G AG A+ +A+ G T++LS
Sbjct: 7 DALVIGAGLAGLRVAIAAAQRGLDTIVLS 35
>gnl|CDD|223651 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 532
Score = 34.2 bits (79), Expect = 0.25
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
+FDVIV+GGG G A +A G K L+
Sbjct: 12 EFDVIVIGGGITGAGIARDAAGRGLKVALV 41
>gnl|CDD|225307 COG2509, COG2509, Uncharacterized FAD-dependent dehydrogenases
[General function prediction only].
Length = 486
Score = 33.8 bits (78), Expect = 0.28
Identities = 18/51 (35%), Positives = 28/51 (54%)
Query: 106 QAIRFYLENQLNLYLFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTG 156
+ IR YLE+ F EV+D+ I+ N++LGV G + + V+L G
Sbjct: 177 KNIREYLESLGGEIRFNTEVEDIEIEDNEVLGVKLTKGEEIEADYVVLAPG 227
>gnl|CDD|232908 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 [Biosynthesis of cofactors,
prosthetic groups, and carriers, Thiamine].
Length = 254
Score = 33.3 bits (76), Expect = 0.30
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
DVI+VG G +G AA A+ G K +L ++ G GG+ S +V E A
Sbjct: 23 DVIIVGAGPSGLTAAYYLAKNGLKVCVLERSLAFGGGS----WGGGMLFSKIVVEKPA 76
>gnl|CDD|233987 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 [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 492
Score = 33.9 bits (78), Expect = 0.30
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 9 VIVVGGGHAG-TEAALVSARMGQKTLLLSHNI 39
V+V+G G AG T AAL++ R + TLL H
Sbjct: 4 VVVIGAGIAGLTAAALLAKRGYRVTLLEQHAQ 35
>gnl|CDD|240630 cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic
domains. Alanine dehydrogenase (L-AlaDH) catalyzes the
NAD-dependent conversion of pyruvate to L-alanine via
reductive amination. Like formate dehydrogenase and
related enzymes, L-AlaDH is comprised of 2 domains
connected by a long alpha helical stretch, each
resembling a Rossmann fold NAD-binding domain. The
NAD-binding domain is inserted within the linear
sequence of the more divergent catalytic domain. Ligand
binding and active site residues are found in the cleft
between the subdomains. L-AlaDH is typically hexameric
and is critical in carbon and nitrogen metabolism in
micro-organisms.
Length = 359
Score = 33.5 bits (78), Expect = 0.31
Identities = 10/37 (27%), Positives = 21/37 (56%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQM 45
V+++G G G AA V+ +G + +L N++ + +
Sbjct: 171 VVILGAGVVGENAARVALGLGAEVTVLDINLERLRYL 207
>gnl|CDD|177713 PLN00093, PLN00093, geranylgeranyl diphosphate reductase;
Provisional.
Length = 450
Score = 33.6 bits (77), Expect = 0.37
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGI 54
K V V+GGG AG AA A+ G +T L+ +D P G I
Sbjct: 39 KLRVAVIGGGPAGACAAETLAKGGIETFLIERKLDN-----AKPCGGAI 82
>gnl|CDD|236010 PRK07395, PRK07395, L-aspartate oxidase; Provisional.
Length = 553
Score = 33.1 bits (76), Expect = 0.44
Identities = 13/19 (68%), Positives = 15/19 (78%)
Query: 5 SKFDVIVVGGGHAGTEAAL 23
S+FDV+VVG G AG AAL
Sbjct: 8 SQFDVLVVGSGAAGLYAAL 26
>gnl|CDD|235774 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 33.2 bits (77), Expect = 0.45
Identities = 37/153 (24%), Positives = 57/153 (37%), Gaps = 42/153 (27%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNID---------TIGQMSCNPS---IGG 53
K+DVIV+G G AG AA +A++G+K L I+ +G C PS I
Sbjct: 3 KYDVIVIGAGPAGYVAARRAAKLGKKVAL----IEKGPLGGTCLNVG---CIPSKALIAA 55
Query: 54 IGKSHLVKEIDAMGGIMAIATDKSGIQFRILNSSKGAAVRATRAQVDRILYKQAIRFYLE 113
H K + G I D I F+ + R + DR + + LE
Sbjct: 56 AEAFHEAKHAEEFG----IHADGPKIDFK-------KVMARVRRERDR--FVGGVVEGLE 102
Query: 114 NQLNLYLFQE----------EVDDLIIKTNKIL 136
+ + + EV+ I+ I+
Sbjct: 103 KKPKIDKIKGTARFVDPNTVEVNGERIEAKNIV 135
>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 = 33.2 bits (76), Expect = 0.46
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 10/46 (21%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGG 53
D+ V+GGG AG AL AR G + + + +P I G
Sbjct: 1 DLAVIGGGPAGLAIALELARPGLR----------VQLIEPHPPIPG 36
>gnl|CDD|232901 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 [Unknown function, Enzymes of
unknown specificity].
Length = 400
Score = 32.9 bits (76), Expect = 0.50
Identities = 15/29 (51%), Positives = 19/29 (65%)
Query: 10 IVVGGGHAGTEAALVSARMGQKTLLLSHN 38
I++GGG AG AA+ +AR G LLL N
Sbjct: 1 IIIGGGAAGLMAAITAAREGLSVLLLEKN 29
>gnl|CDD|181564 PRK08849, PRK08849,
2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Provisional.
Length = 384
Score = 32.8 bits (75), Expect = 0.55
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSH 37
K+D+ VVGGG G AL A+ G+ ++
Sbjct: 3 KYDIAVVGGGMVGAATALGFAKQGRSVAVIEG 34
>gnl|CDD|180854 PRK07121, PRK07121, hypothetical protein; Validated.
Length = 492
Score = 32.9 bits (76), Expect = 0.59
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV+VVG G AG AA+ +A G + L+L
Sbjct: 22 DVVVVGFGAAGACAAIEAAAAGARVLVL 49
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 32.6 bits (74), Expect = 0.61
Identities = 22/97 (22%), Positives = 40/97 (41%), Gaps = 7/97 (7%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAMG 67
DV+VVG G G EAA +A+ G+K L+ GQ+ L + ++ G
Sbjct: 138 DVVVVGAGPIGLEAAEAAAKRGKKVTLIEAADRLGGQLLDPE-----VAEELAELLEKYG 192
Query: 68 GIMAIATDKSGIQFR--ILNSSKGAAVRATRAQVDRI 102
+ + T G++ + L + + + D +
Sbjct: 193 VELLLGTKVVGVEGKGNTLVVERVVGIDGEEIKADLV 229
Score = 30.7 bits (69), Expect = 2.6
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 9 VIVVGGGHAGTEAA 22
+++VGGG AG AA
Sbjct: 1 IVIVGGGAAGLSAA 14
>gnl|CDD|233700 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 [Cellular processes,
Detoxification].
Length = 463
Score = 32.8 bits (75), Expect = 0.67
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNI--DTIGQMSCNPS 50
+D++++G G A AA+ +A +G ++ T + C PS
Sbjct: 1 YDLVIIGSGAAAFAAAIKAAELGASVAMVERGPLGGTCVNVGCVPS 46
>gnl|CDD|236054 PRK07573, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 640
Score = 32.9 bits (76), Expect = 0.68
Identities = 15/26 (57%), Positives = 16/26 (61%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMG 29
K KFDVIVVG G AG AA +G
Sbjct: 33 KRKFDVIVVGTGLAGASAAATLGELG 58
>gnl|CDD|180319 PRK05945, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 575
Score = 32.8 bits (75), Expect = 0.71
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 23/70 (32%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPS--IGGIGKSHLVK-- 61
+ DV++VGGG AG AAL R+ +PS + + K+H ++
Sbjct: 3 EHDVVIVGGGLAGCRAALEIKRL-------------------DPSLDVAVVAKTHPIRSH 43
Query: 62 EIDAMGGIMA 71
+ A GGI A
Sbjct: 44 SVAAQGGIAA 53
>gnl|CDD|181199 PRK08020, ubiF, 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol
hydroxylase; Reviewed.
Length = 391
Score = 32.3 bits (74), Expect = 0.71
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSH 37
D+ +VGGG G AL A+ G +L H
Sbjct: 3 NQPTDIAIVGGGMVGAALALGLAQHGFSVAVLEH 36
>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 = 32.4 bits (74), Expect = 0.87
Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 12/81 (14%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHN-----IDTIGQMSCNPSIGGIGKSHLVK 61
+D+I++GGG AG A + + R TL++ + I ++ P I L++
Sbjct: 5 YDLIIIGGGPAGLSAGIYAGRAKLDTLIIEKDDFGGQITITSEVVNYPGILNTTGPELMQ 64
Query: 62 EIDAMGGIMAIATDKSGIQFR 82
E M G++F
Sbjct: 65 E-------MRQQAQDFGVKFL 78
Score = 29.0 bits (65), Expect = 9.4
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 4/56 (7%)
Query: 3 FKSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSH 58
F + DV V+GGG A E A+ R K ++ D +C I K+H
Sbjct: 140 FFTGMDVFVIGGGFAAAEEAVFLTRYASKVTVIVREPD----FTCAKLIAEKVKNH 191
>gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed.
Length = 549
Score = 32.2 bits (74), Expect = 0.88
Identities = 16/28 (57%), Positives = 18/28 (64%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DVIVVG G AG AA A G++ LLL
Sbjct: 6 DVIVVGAGLAGLVAAAELADAGKRVLLL 33
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 32.0 bits (73), Expect = 0.92
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
K ++D ++VG G AG+ A + G L+L
Sbjct: 5 KMEYDYVIVGSGSAGSVLAARLSDAGLSVLVL 36
>gnl|CDD|224550 COG1635, THI4, Ribulose 1,5-bisphosphate synthetase, converts
PRPP to RuBP, flavoprotein [Carbohydrate transport
and metabolism].
Length = 262
Score = 31.9 bits (73), Expect = 0.95
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 9/48 (18%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIG 55
DVI+VG G +G AA A+ G K + + + G GGI
Sbjct: 32 DVIIVGAGPSGLTAAYYLAKAGLKVAIFERKL-SFG--------GGIW 70
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and
related FAD-dependent oxidoreductases [Coenzyme
metabolism / Energy production and conversion].
Length = 387
Score = 32.0 bits (73), Expect = 0.95
Identities = 14/29 (48%), Positives = 15/29 (51%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV +VG G AG AL AR G LL
Sbjct: 3 LDVAIVGAGPAGLALALALARAGLDVTLL 31
>gnl|CDD|216396 pfam01262, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. This family now also contains the lysine
2-oxoglutarate reductases.
Length = 150
Score = 31.0 bits (71), Expect = 0.99
Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
V+V+GGG G AA + +G +L + + Q + + + +I +
Sbjct: 23 VVVIGGGVVGLGAAATAKGLGAPVTILDVRPERLEQ------LDSLFAEFVETDIFS 73
>gnl|CDD|153352 cd07668, BAR_SNX9, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 9. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions. Sorting nexins (SNXs)
are Phox homology (PX) domain containing proteins that
are involved in regulating membrane traffic and protein
sorting in the endosomal system. SNXs differ from each
other in their lipid-binding specificity, subcellular
localization and specific function in the endocytic
pathway. A subset of SNXs also contain BAR domains. The
PX-BAR structural unit determines the specific membrane
targeting of SNXs. SNX9, also known as SH3PX1, is a
cytosolic protein that interacts with proteins
associated with clathrin-coated pits such as
Cdc-42-associated tyrosine kinase 2 (ACK2). It binds
class I polyproline sequences found in dynamin 1/2 and
the WASP/N-WASP actin regulators. SNX9 is localized to
plasma membrane endocytic sites and acts primarily in
clathrin-mediated endocytosis. Its array of interacting
partners suggests that SNX9 functions at the interface
between endocytosis and actin cytoskeletal organization.
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 210
Score = 31.5 bits (71), Expect = 1.0
Identities = 33/111 (29%), Positives = 44/111 (39%), Gaps = 6/111 (5%)
Query: 15 GHAGTEAALVSARMGQKTL--LLSHNIDTIGQMSCNPSIGGIGKSHL--VKEIDAMGGIM 70
G E A + A +K L L+ N + G + C P I G K + VKE D +
Sbjct: 83 GKTYEEIASLVAEQPKKDLHFLMETNHEYKGFLGCFPDIIGAHKGAIEKVKESDKLVATS 142
Query: 71 AI-ATDKSGIQFRILNSSKGAAVRATRAQVDRIL-YKQAIRFYLENQLNLY 119
I DK + R+ S +RI Y IR YLE Q+ Y
Sbjct: 143 KITLQDKQNMVKRVSTMSYALQAEMNHFHSNRIYDYNSVIRLYLEQQVQFY 193
>gnl|CDD|232905 TIGR00284, TIGR00284, dihydropteroate synthase-related protein.
This protein has been found so far only in the Archaea,
and in particular in those archaea that lack a
bacterial-type dihydropteroate synthase. The central
region of this protein shows considerable homology to
the amino-terminal half of dihydropteroate synthases,
while the carboxyl-terminal region shows homology to the
small, uncharacterized protein slr0651 of Synechocystis
PCC6803 [Unknown function, General].
Length = 499
Score = 32.2 bits (73), Expect = 1.0
Identities = 27/117 (23%), Positives = 50/117 (42%), Gaps = 15/117 (12%)
Query: 451 EIGWKLGCVSYKQWKIFEKKREIITKELQRLKDTWINPSILNTGESERVLGKRIKHEYSL 510
+IG +L K + E + +R+ +I PS+ TG ++ ++ HE +
Sbjct: 383 DIGTRL--FVVKDKRRP---PEPVEPPGERINVDYIEPSMDRTGYAK----IQVDHERGV 433
Query: 511 SNLLTWPNVNYNTLTSLKGINGKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVE 567
L +P +T I GK T I + I++ L++ GYI ++ + E
Sbjct: 434 IMLTFYPAGGEPVVT----IEGKK--PTSILRALIRRFPVSSLEHAGYIGYELAKAE 484
>gnl|CDD|236101 PRK07803, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 626
Score = 31.9 bits (73), Expect = 1.1
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 17/65 (26%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDAM 66
+DV+V+G G AG AA+ + G + ++ ++ GK+H V A
Sbjct: 9 YDVVVIGAGGAGLRAAIEARERGLRVAVVCKSL--------------FGKAHTVM---AE 51
Query: 67 GGIMA 71
GG A
Sbjct: 52 GGCAA 56
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 31.7 bits (73), Expect = 1.1
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLL 34
++D IV+G G AG A +A +G K L
Sbjct: 5 RYDAIVIGAGQAGPPLAARAAGLGMKVAL 33
>gnl|CDD|183787 PRK12844, PRK12844, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 557
Score = 32.0 bits (73), Expect = 1.2
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLL 35
+DV+VVG G G AAL +A G + L++
Sbjct: 7 YDVVVVGSGGGGMCAALAAADSGLEPLIV 35
>gnl|CDD|235727 PRK06183, mhpA, 3-(3-hydroxyphenyl)propionate hydroxylase;
Validated.
Length = 500
Score = 31.0 bits (71), Expect = 1.8
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQ 44
DV++VG G G A + + G + L+L
Sbjct: 11 TDVVIVGAGPVGLTLANLLGQYGVRVLVLERWPTLYDL 48
>gnl|CDD|233412 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 = 31.0 bits (70), Expect = 1.9
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
+D+IV+GGG G AA +A G K +LL
Sbjct: 2 DYDLIVIGGGSGGLAAAKEAAAYGAKVMLL 31
>gnl|CDD|236185 PRK08205, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 583
Score = 31.1 bits (71), Expect = 1.9
Identities = 11/31 (35%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLS 36
++DV++VG G AG AA+ + +T +L+
Sbjct: 5 RYDVVIVGAGGAGMRAAIEAGP-RARTAVLT 34
>gnl|CDD|180584 PRK06481, PRK06481, fumarate reductase flavoprotein subunit;
Validated.
Length = 506
Score = 31.3 bits (71), Expect = 1.9
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
K K+D+++VG G AG AA+ + G ++L
Sbjct: 59 KDKYDIVIVGAGGAGMSAAIEAKDAGMNPVIL 90
>gnl|CDD|240384 PTZ00367, PTZ00367, squalene epoxidase; Provisional.
Length = 567
Score = 31.4 bits (71), Expect = 1.9
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDT 41
+DVI+VGG AG A ++ G+K L+L ++ +
Sbjct: 34 YDVIIVGGSIAGPVLAKALSKQGRKVLMLERDLFS 68
>gnl|CDD|173960 cd08550, GlyDH-like, Glycerol_dehydrogenase-like. Families of
proteins related to glycerol dehydrogenases. Glycerol
dehydrogenases (GlyDH) is a key enzyme in the glycerol
dissimilation pathway. In anaerobic conditions, many
microorganisms utilize glycerol as a source of carbon
through coupled oxidative and reductive pathways. One of
the pathways involves the oxidation of glycerol to
dihydroxyacetone with the reduction of NAD+ to NADH
catalyzed by glycerol dehydrogenases. Dihydroxyacetone
is then phosphorylated by dihydroxyacetone kinase and
enters the glycolytic pathway for further degradation.
The activity of GlyDH is zinc-dependent. The zinc ion
plays a role in stabilizing an alkoxide intermediate at
the active site. Some subfamilies have not been
characterized till now.
Length = 349
Score = 30.9 bits (70), Expect = 2.0
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 277 YCPSIEDKVYRFPKKKSHHIFLEPEGIVIN--EYYPNGISTSLPFEAQIELV 326
Y E Y F K+ + ++ E I + EY +GI+ +L + E V
Sbjct: 124 YSDDGEFARYDFQKRNPDLVLVDTEVIAQSPAEYLWSGIADALAKWYEAEAV 175
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family
includes various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 30.7 bits (70), Expect = 2.0
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV+V+GGG G A AR G LL
Sbjct: 1 DVVVIGGGIVGLSTAYELARRGLSVTLL 28
>gnl|CDD|240286 PTZ00139, PTZ00139, Succinate dehydrogenase [ubiquinone]
flavoprotein subunit; Provisional.
Length = 617
Score = 31.2 bits (71), Expect = 2.0
Identities = 23/66 (34%), Positives = 28/66 (42%), Gaps = 17/66 (25%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMSCNPSIGGIGKSHLVKEIDA 65
+D +VVG G AG AAL +G KT +S T +SH V A
Sbjct: 29 TYDAVVVGAGGAGLRAALGLVELGYKTACISKLFPT--------------RSHTVA---A 71
Query: 66 MGGIMA 71
GGI A
Sbjct: 72 QGGINA 77
>gnl|CDD|139425 PRK13248, PRK13248, phycoerythrobilin:ferredoxin oxidoreductase;
Provisional.
Length = 253
Score = 30.7 bits (69), Expect = 2.2
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 508 YSLSNLLTWPNVNYNTLTSLKGINGKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVE 567
YS+ N L PN YN G++ +L N+ + D + LKIQ QY +L ++ +++
Sbjct: 82 YSVLNFLIIPNTIYNV--PFFGVDFVSLPNSHLLVLDFQPSLKIQNQYNNELLEKLIKLK 139
Query: 568 KN 569
+
Sbjct: 140 NH 141
>gnl|CDD|185416 PTZ00052, PTZ00052, thioredoxin reductase; Provisional.
Length = 499
Score = 30.9 bits (70), Expect = 2.3
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLL 34
+D++V+GGG G AA +A G+K L
Sbjct: 6 YDLVVIGGGSGGMAAAKEAAAHGKKVAL 33
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 30.9 bits (70), Expect = 2.3
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLL 35
VIVVGGG AG AA+ +A G + +LL
Sbjct: 412 VIVVGGGLAGCSAAIEAASCGAQVILL 438
>gnl|CDD|237223 PRK12839, PRK12839, hypothetical protein; Provisional.
Length = 572
Score = 30.6 bits (69), Expect = 2.6
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIG 43
+DV+VVG G G AA V+A G +L+ T G
Sbjct: 6 THTYDVVVVGSGAGGLSAA-VAAAYGGAKVLVVEKASTCG 44
>gnl|CDD|227881 COG5594, COG5594, Uncharacterized integral membrane protein
[Function unknown].
Length = 827
Score = 30.9 bits (70), Expect = 2.7
Identities = 14/77 (18%), Positives = 28/77 (36%), Gaps = 1/77 (1%)
Query: 532 GKNLYNTEIYQEDIKKQLKIQLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSI 591
+ QE K++ KI + E + +N++ K + K L + + I
Sbjct: 241 DVLCRDLGTLQELYKERDKILKKLEKALNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEI 300
Query: 592 EARQKLNKYKP-ETIGQ 607
+K +P I +
Sbjct: 301 LPEYVPDKKRPKHRIKK 317
>gnl|CDD|226103 COG3573, COG3573, Predicted oxidoreductase [General function
prediction only].
Length = 552
Score = 30.6 bits (69), Expect = 2.7
Identities = 15/32 (46%), Positives = 18/32 (56%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
DVIVVG G AG AA A G++ L+L
Sbjct: 3 GLTADVIVVGAGLAGLVAAAELADAGKRVLIL 34
>gnl|CDD|145062 pfam01710, HTH_Tnp_IS630, Transposase. Transposase proteins are
necessary for efficient DNA transposition. This family
includes insertion sequences from Synechocystis PCC 6803
three of which are characterized as homologous to
bacterial IS5- and IS4- and to several members of the
IS630-Tc1-mariner superfamily.
Length = 120
Score = 29.0 bits (65), Expect = 3.0
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 6/45 (13%)
Query: 442 EDNADLRLTEIGWKLGCVSY------KQWKIFEKKREIITKELQR 480
+DN D L E K G K+ KI KK + ++ R
Sbjct: 67 KDNPDAYLKERAKKFGVTPSSIHYALKKMKITRKKNDYFIEKEMR 111
>gnl|CDD|233671 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
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 387
Score = 30.3 bits (69), Expect = 3.0
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQ-KTLLLSHN 38
D+++VGGG G AL AR G K L+
Sbjct: 1 DIVIVGGGPVGLALALALARSGGLKVALIEAT 32
>gnl|CDD|236106 PRK07818, PRK07818, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 30.4 bits (69), Expect = 3.2
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKT 32
+ +DV+V+G G G AA+ +A++G KT
Sbjct: 3 THYDVVVLGAGPGGYVAAIRAAQLGLKT 30
>gnl|CDD|236319 PRK08641, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 589
Score = 30.3 bits (69), Expect = 3.3
Identities = 14/28 (50%), Positives = 16/28 (57%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLS 36
VIVVGGG AG A + +A G L S
Sbjct: 6 VIVVGGGLAGLMATIKAAEAGVHVDLFS 33
>gnl|CDD|237221 PRK12835, PRK12835, 3-ketosteroid-delta-1-dehydrogenase;
Reviewed.
Length = 584
Score = 30.5 bits (69), Expect = 3.5
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 3 FKSKFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
F + DV+VVG G G AAL +A G TL++
Sbjct: 8 FDREVDVLVVGSGGGGMTAALTAAARGLDTLVV 40
>gnl|CDD|201190 pfam00376, MerR, MerR family regulatory protein.
Length = 38
Score = 26.6 bits (60), Expect = 3.7
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 604 TIGQASRISGVTPAAL 619
TIG+ +++ GV+P L
Sbjct: 1 TIGEVAKLLGVSPRTL 16
>gnl|CDD|197399 cd10163, ClassIIa_HDAC9_Gln-rich-N, Glutamine-rich N-terminal
helical domain of HDAC9, a Class IIa histone
deacetylase. This family consists of the glutamine-rich
domain of histone deacetylase 9 (HDAC9). It belongs to a
superfamily that consists of the glutamine-rich
N-terminal helical extension to certain Class IIa
histone deacetylases (HDACs), including HDAC4, HDAC5 and
HDCA9; it is missing from HDAC7. This domain confers
responsiveness to calcium signals and mediates
interactions with transcription factors and cofactors,
and it is able to repress transcription independently of
the HDAC C-terminal, zinc-dependent catalytic domain. It
has many intra- and inter-helical interactions which are
possibly involved in reversible assembly and disassembly
of proteins. HDACs regulate diverse cellular processes
through enzymatic deacetylation of histone as well as
non-histone proteins, in particular deacetylating
N(6)-acetyl-lysine residues.
Length = 90
Score = 28.2 bits (62), Expect = 4.0
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 8/65 (12%)
Query: 542 QEDIKKQLKI---QLQYEGYILRQINEVEKNKINENLKLPHNLDYMKIQSLSIEARQKLN 598
Q+ I+KQL I Q Q+E + RQ + ++ E+LKL L MK Q +E QKL
Sbjct: 19 QQQIQKQLLIAEFQKQHEN-LTRQ----HQAQLQEHLKLQQELLAMKQQQELLEKEQKLE 73
Query: 599 KYKPE 603
+ + E
Sbjct: 74 QQRQE 78
>gnl|CDD|214966 smart01002, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. Alanine dehydrogenase catalyzes the
NAD-dependent reversible reductive amination of
pyruvate into alanine.
Length = 149
Score = 29.0 bits (66), Expect = 4.7
Identities = 10/36 (27%), Positives = 17/36 (47%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQ 44
V+V+G G G AA + +G + +L + Q
Sbjct: 23 VVVIGAGVVGLGAAATAKGLGAEVTVLDVRPARLRQ 58
>gnl|CDD|180409 PRK06115, PRK06115, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 29.8 bits (67), Expect = 4.7
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKT 32
+ +DV+++GGG G AA+ + ++G K
Sbjct: 2 ASYDVVIIGGGPGGYNAAIRAGQLGLKV 29
>gnl|CDD|216530 pfam01494, FAD_binding_3, FAD binding domain. This domain is
involved in FAD binding in a number of enzymes.
Length = 349
Score = 29.6 bits (67), Expect = 5.2
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV++VGGG AG AL+ AR G + +L+
Sbjct: 3 DVLIVGGGPAGLMLALLLARAGVRVVLV 30
>gnl|CDD|215257 PLN02464, PLN02464, glycerol-3-phosphate dehydrogenase.
Length = 627
Score = 29.7 bits (67), Expect = 5.6
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLL 34
DV+VVGGG G AL +A G + L
Sbjct: 72 LDVLVVGGGATGAGVALDAATRGLRVGL 99
>gnl|CDD|203096 pfam04820, Trp_halogenase, Tryptophan halogenase. Tryptophan
halogenase catalyzes the chlorination of tryptophan to
form 7-chlorotryptophan. This is the first step in the
biosynthesis of pyrrolnitrin, an antibiotic with
broad-spectrum anti-fungal activity. Tryptophan
halogenase is NADH-dependent.
Length = 457
Score = 29.6 bits (67), Expect = 5.8
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQK----TLLLSHNIDTIG 43
+++VGGG AG AA AR + TL+ S I T+G
Sbjct: 1 KIVIVGGGTAGWMAAAALARALKGGLDVTLVESEEIGTVG 40
>gnl|CDD|235373 PRK05249, PRK05249, soluble pyridine nucleotide transhydrogenase;
Provisional.
Length = 461
Score = 29.7 bits (68), Expect = 5.9
Identities = 10/26 (38%), Positives = 20/26 (76%)
Query: 6 KFDVIVVGGGHAGTEAALVSARMGQK 31
+D++V+G G AG AA+ +A++G++
Sbjct: 5 DYDLVVIGSGPAGEGAAMQAAKLGKR 30
>gnl|CDD|237198 PRK12771, PRK12771, putative glutamate synthase (NADPH) small
subunit; Provisional.
Length = 564
Score = 29.5 bits (67), Expect = 7.0
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 9 VIVVGGGHAGTEAALVSARMG 29
V V+GGG AG AA RMG
Sbjct: 140 VAVIGGGPAGLSAAYHLRRMG 160
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 29.1 bits (65), Expect = 7.3
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 4 KSKFDVIVVGGGHAGTEAALVSARMGQKTLLL 35
K DV+++GGG G AA A G +L
Sbjct: 2 SMKMDVVIIGGGIVGLSAAYYLAERGADVTVL 33
>gnl|CDD|236158 PRK08132, PRK08132, FAD-dependent oxidoreductase; Provisional.
Length = 547
Score = 29.5 bits (67), Expect = 7.4
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHNIDTIGQMS 46
V+VVG G G A+ A+ G +LL + DT+ S
Sbjct: 26 VVVVGAGPVGLALAIDLAQQGVPVVLLDDD-DTLSTGS 62
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 28.8 bits (65), Expect = 7.7
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 9 VIVVGGGHAGTEAALVSARMGQKTLLLSHN 38
V V+GGGH +AAL +G+ ++
Sbjct: 169 VAVIGGGHTAIDAALNLLDLGKDVTWITRR 198
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 29.0 bits (66), Expect = 8.2
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 7 FDVIVVGGGHAGTEAALVSARMGQKTLL 34
+D+IV+GGG G +A +A G K L
Sbjct: 5 YDLIVIGGGSGGIASANRAAMYGAKVAL 32
>gnl|CDD|223108 COG0029, NadB, Aspartate oxidase [Coenzyme metabolism].
Length = 518
Score = 29.1 bits (66), Expect = 8.3
Identities = 43/205 (20%), Positives = 66/205 (32%), Gaps = 76/205 (37%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLS----------------------------HNI 39
DV+++G G AG AAL S + +L+ H
Sbjct: 9 DVLIIGSGLAGLTAAL-SLAPSFRVTVLTKGPLGESSSYWAQGGIAAALSEDDSPELHVA 67
Query: 40 DTI--GQMSCNPSIGGIGKSHLVKEIDAMGGIMAIAT-DKSGIQF--------------- 81
DT+ G C+ +V E AI G+ F
Sbjct: 68 DTLAAGAGLCDEEAVEF----IVSE-----APEAIEWLIDLGVPFDRDEDGRLHLTREGG 118
Query: 82 ----RILNSSKGAAVRATRAQVDRILYKQAIRFYLENQLNLYLF-QEEVDDLIIKTNK-I 135
RIL+ + A + + L K+ N+ N+ + E DLII+ +
Sbjct: 119 HSRRRILH-AADATGKE----IMTALLKKV-----RNRPNITVLEGAEALDLIIEDGIGV 168
Query: 136 LGVVT----KIGIKFFSKTVILTTG 156
GV+ F +K V+L TG
Sbjct: 169 AGVLVLNRNGELGTFRAKAVVLATG 193
>gnl|CDD|237224 PRK12842, PRK12842, putative succinate dehydrogenase; Reviewed.
Length = 574
Score = 29.3 bits (66), Expect = 8.6
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLL 35
DV+V+G G G AA+ + ++G ++L
Sbjct: 11 DVLVIGSGAGGLSAAITARKLGLDVVVL 38
>gnl|CDD|131084 TIGR02029, AcsF, magnesium-protoporphyrin IX monomethyl ester
aerobic oxidative cyclase. This model respresents the
oxidative cyclase responsible for forming the
distinctive E-ring of the chlorin ring system under
aerobic conditions. This enzyme is believed to utilize a
binuclear iron center and molecular oxygen. There are
two isoforms of this enzyme in some plants and
cyanobacterai which are differentially regulated based
on the levels of copper and oxygen. This step is
essential in the biosynthesis of both
bacteriochlorophyll and chlorophyll under aerobic
conditions (a separate enzyme, BchE, acts under
anaerobic conditions). This enzyme is found in plants,
cyanobacteria and other photosynthetic bacteria
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 337
Score = 29.0 bits (65), Expect = 8.8
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 573 ENLKLPHNLDYMKIQSLSIEARQKLNKYKPETIGQASRISGVTPAALTLLLIYL 626
E+ + LD M S I A + P+ I R+ + A L++YL
Sbjct: 280 EHPRFRRLLDRMAGYSEKISAIEA--SGGPKFIKLIRRLPLMAAIAWNFLMVYL 331
>gnl|CDD|235584 PRK05732, PRK05732, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Validated.
Length = 395
Score = 29.1 bits (66), Expect = 9.2
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 5 SKFDVIVVGGGHAGTEAALVSARMGQKTL 33
S+ DVI+VGGG AG AL +R+ L
Sbjct: 2 SRMDVIIVGGGMAGATLALALSRLSHGGL 30
>gnl|CDD|236847 PRK11101, glpA, sn-glycerol-3-phosphate dehydrogenase subunit A;
Provisional.
Length = 546
Score = 28.8 bits (65), Expect = 9.6
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 8 DVIVVGGGHAGTEAALVSARMGQKTLLLS-HNIDT 41
DVI++GGG G A A G + +L+ H+I T
Sbjct: 8 DVIIIGGGATGAGIARDCALRGLRCILVERHDIAT 42
>gnl|CDD|181346 PRK08275, PRK08275, putative oxidoreductase; Provisional.
Length = 554
Score = 28.9 bits (65), Expect = 9.6
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 6 KFDVIVVGGGHAGTEAAL 23
+ D++V+GGG AG AA+
Sbjct: 9 ETDILVIGGGTAGPMAAI 26
>gnl|CDD|215240 PLN02439, PLN02439, arginine decarboxylase.
Length = 559
Score = 28.9 bits (65), Expect = 9.8
Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 19/84 (22%)
Query: 120 LFQEEVDDLIIKTNKILGVVTKIGIKFFSKTVILTTGTFLNGKIHIGLKSYSAGRFGDFS 179
L QEE DL+I+ ++ LGV IG++ L T +G H G S G+FG +
Sbjct: 114 LEQEEELDLVIEASQRLGVRPVIGVR-----AKLRTKH--SG--HFGSTSGEKGKFG-LT 163
Query: 180 TT---SLAKRLKE------LQLSH 194
T + ++L++ LQL H
Sbjct: 164 ATEIVRVVRKLRKEGMLDCLQLLH 187
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
0.318 0.137 0.394
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 32,833,961
Number of extensions: 3324506
Number of successful extensions: 3504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3480
Number of HSP's successfully gapped: 165
Length of query: 637
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 534
Effective length of database: 6,369,140
Effective search space: 3401120760
Effective search space used: 3401120760
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.5 bits)