RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4102
(1049 letters)
>gnl|CDD|235000 PRK02106, PRK02106, choline dehydrogenase; Validated.
Length = 560
Score = 319 bits (820), Expect = 1e-97
Identities = 145/309 (46%), Positives = 183/309 (59%), Gaps = 24/309 (7%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEAGGDENEIS---DIPS-LAGYLQLSELDW 146
YD+I+IGAGSAG V+ANRLSE+PD +LL+EAGG + +P+ LA LQ +W
Sbjct: 6 YDYIIIGAGSAGCVLANRLSEDPDVSVLLLEAGGPDYRWDFFIQMPAALAFPLQGKRYNW 65
Query: 147 KYKTEP-PMGDSAYCLAMVGDRCNWPRGKVLGGSSVLNAMIYVRGNKNDYDQW-ERLGNP 204
Y+TEP P M R PRGKVLGGSS +N M+Y+RGN DYD W E G
Sbjct: 66 AYETEPEPH--------MNNRRMECPRGKVLGGSSSINGMVYIRGNAMDYDNWAELPGLE 117
Query: 205 GWGYKDVLPYFKKSEDNRNEYLLRTPYHSKGGYLTVQES-PWHSPLAAAFVKAGEELGYE 263
GW Y D LPYFKK+E Y G L+V P +PL AFV+AG + GY
Sbjct: 118 GWSYADCLPYFKKAETRDGGE---DDYRGGDGPLSVTRGKPGTNPLFQAFVEAGVQAGYP 174
Query: 264 -NRDINGERQTGFMIAQGTIRRGSRCSTSKAFLRPIRLRKNLHIAMETQALRLLFDKSGP 322
D+NG +Q GF T+ G R S ++A+L P R NL I R+LF+
Sbjct: 175 RTDDLNGYQQEGFGPMDRTVTNGRRWSAARAYLDPALKRPNLTIVTHALTDRILFEG--- 231
Query: 323 VPKAVGIEILRDGRKHIIRAKKEIISSAGAINSPQLLMVSGIGPEEHLQGLNIPIIKNL- 381
+AVG+E R G + RA++E+I SAGAINSPQLL +SGIGP EHL+ L IP++ +L
Sbjct: 232 -KRAVGVEYERGGGRETARARREVILSAGAINSPQLLQLSGIGPAEHLKELGIPVVHDLP 290
Query: 382 SVGHNLQDH 390
VG NLQDH
Sbjct: 291 GVGENLQDH 299
Score = 153 bits (389), Expect = 5e-39
Identities = 64/143 (44%), Positives = 85/143 (59%), Gaps = 8/143 (5%)
Query: 783 YIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRIAFNVSASAAFQKYNSRPLLTPMPGC 842
++L+S +P +P I NY +D + IR+ + A A Y R + PG
Sbjct: 396 SVKLKSADPRAHPSILFNYMSTEQDWREFRDAIRLTREIMAQPALDPYRGREIS---PGA 452
Query: 843 AMFELFSDEYWECSLRHFTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASI 902
++ +DE + +R T YHP+ TCKMG TDP AVVDP RV+GV+GLRV+DASI
Sbjct: 453 ---DVQTDEEIDAFVREHAETAYHPSCTCKMG--TDPMAVVDPEGRVHGVEGLRVVDASI 507
Query: 903 MPIIVSGNPNAPTIMIGEKGADM 925
MP I +GN NAPTIMI EK AD+
Sbjct: 508 MPTITNGNLNAPTIMIAEKAADL 530
Score = 95.3 bits (238), Expect = 4e-20
Identities = 37/53 (69%), Positives = 42/53 (79%), Gaps = 2/53 (3%)
Query: 936 MGPATDLEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKGADM 988
MG TD AVVDP RV+GV+GLRV+DASIMP I +GN NAPTIMI EK AD+
Sbjct: 480 MG--TDPMAVVDPEGRVHGVEGLRVVDASIMPTITNGNLNAPTIMIAEKAADL 530
Score = 72.6 bits (179), Expect = 6e-13
Identities = 40/126 (31%), Positives = 61/126 (48%), Gaps = 27/126 (21%)
Query: 476 SCHILVLSSGIGPEEHLQGLNIPIIKNL-SVGHNLQDHVGLGGLTFIVD----GPVT--- 527
S +L LS GIGP EHL+ L IP++ +L VG NLQDH L + PV+
Sbjct: 263 SPQLLQLS-GIGPAEHLKELGIPVVHDLPGVGENLQDH-----LEVYIQYECKQPVSLYP 316
Query: 528 ----FKKERYQTLSVALQYILNERGPLTSLGGVEGLAFVNTKYAPSGGDWPDVQFHFAPS 583
+ K + +++ G S E F+ ++ +G DWP++Q+HF P
Sbjct: 317 ALKWWNK-----PKIGAEWLFTGTGLGAS-NHFEAGGFIRSR---AGVDWPNIQYHFLPV 367
Query: 584 SVNSDG 589
++ DG
Sbjct: 368 AIRYDG 373
Score = 47.1 bits (113), Expect = 4e-05
Identities = 22/38 (57%), Positives = 27/38 (71%), Gaps = 2/38 (5%)
Query: 653 SCHILVLSSGIGPEEHLQGLNIPIIKNL-SVGHNLQDH 689
S +L LS GIGP EHL+ L IP++ +L VG NLQDH
Sbjct: 263 SPQLLQLS-GIGPAEHLKELGIPVVHDLPGVGENLQDH 299
Score = 46.4 bits (111), Expect = 6e-05
Identities = 13/48 (27%), Positives = 22/48 (45%)
Query: 736 YIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRIAFNVSASAAFKKY 783
++L+S +P +P I NY +D + IR+ + A A Y
Sbjct: 396 SVKLKSADPRAHPSILFNYMSTEQDWREFRDAIRLTREIMAQPALDPY 443
>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
[Amino acid transport and metabolism].
Length = 542
Score = 274 bits (703), Expect = 2e-81
Identities = 132/359 (36%), Positives = 193/359 (53%), Gaps = 25/359 (6%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEAGG-DENEISDIPSLAGYLQLSE-LDWKY 148
YD++++G+GSAG+V+A RLS+ +L++EAGG D + +P+ +L DW +
Sbjct: 8 YDYVIVGSGSAGSVLAARLSD-AGLSVLVLEAGGPDRRPLIQMPAAYAFLMNGPRYDWGF 66
Query: 149 KTEPPMGDSAYCLAMVGDR-CNWPRGKVLGGSSVLNAMIYVRGNKNDYDQW-ERLGNPGW 206
+TEP + R WPRGKVLGGSS +N M+YVRG+ D+D W + G PGW
Sbjct: 67 RTEP--------EPHLRGRELAWPRGKVLGGSSSINGMVYVRGHPEDFDAWAQESGAPGW 118
Query: 207 GYKDVLPYFKKSEDNRNEYLLRTP-YHSKGGYLTVQESPWHSPLAAAFVKAGEELGYE-N 264
Y DVLPYFK++ED +H GG L V +P+A AF++AGE+LG+
Sbjct: 119 PYDDVLPYFKRAEDLLGVGGQDLRTWHGGGGPLPVSPPRSPNPIARAFIEAGEQLGFPTT 178
Query: 265 RDINGERQTGFMIAQGTIRRGSRCSTSKAFLRPIRLRKNLHIAMETQALRLLFDKSGPVP 324
D NG Q GF TI G R S ++A+L+P R NL + + R+L +
Sbjct: 179 PDPNGADQEGFGPYCVTICNGRRWSAARAYLKPALKRPNLTLLTGARVRRILLEGD---- 234
Query: 325 KAVGIEILRD--GRKHIIRAKKEIISSAGAINSPQLLMVSGIGPEEHLQGLNIP-IIKNL 381
+AVG+E+ G A +E++ +AGAINSP+LL++SGIGP +HL I + +
Sbjct: 235 RAVGVEVEIGDGGTIETAVAAREVVLAAGAINSPKLLLLSGIGPADHLLEHGIDVVGRLP 294
Query: 382 SVGHNLQDHVGLGGLTFIVDGPV--TFKKERYQTLSVALQYILNERGPLTSLGGVEGLA 438
VG NLQDH+ + + F P + + A +Y+L GP + G
Sbjct: 295 GVGQNLQDHLEI-YVAFEATEPTNDSVLSLFSKLGIGADRYLLTRDGPGATNHFEGGFV 352
Score = 144 bits (364), Expect = 5e-36
Identities = 80/281 (28%), Positives = 113/281 (40%), Gaps = 27/281 (9%)
Query: 655 HILVLSSGIGPEEHLQGLNIP-IIKNLSVGHNLQDHVGLGGLTFIVDGPVTFKKERYQVL 713
+L+LS GIGP +HL I + + VG NLQDH+ + + F P + L
Sbjct: 269 KLLLLS-GIGPADHLLEHGIDVVGRLPGVGQNLQDHLEIY-VAFEATEPTN---DSVLSL 323
Query: 714 LCLSERTDDSTYSTYTNTLFPRYIR---LQSKNPLHYPLIEPNYFQHRRDIETLIEGIRI 770
D T + ++S YP + H + I
Sbjct: 324 FSKLGIGADRYLLTRDGPGATNHFEGGFVRSGPAGEYPDGQ----YHFAPLPLAIRAAGA 379
Query: 771 AFNVSASAAF-----KKYIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRIAFNVSASA 825
+ + + L+S +P + P+I+PNY D GIR+ +
Sbjct: 380 EHGFTLHVGPMRPKSRGSVTLRSPDPDNRPVIDPNYLSAEGDRAIFRAGIRLTREIIGQP 439
Query: 826 AFQKYNSRPLLTPMPGCAMFELFSDEYWECSLRHFTFTIYHPTSTCKMGPPTDPEAVVD- 884
A L P P E S L T YHP TC+MG +DP AVVD
Sbjct: 440 ALDARRKA-ELAPGPRVTTDEDISA--AIRFLAR---TAYHPMGTCRMG--SDPAAVVDD 491
Query: 885 PRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKGADM 925
P LRV+G++ LRV+DAS+MP NPN I + E+ AD
Sbjct: 492 PYLRVHGLENLRVVDASVMPTSTGVNPNLTIIALAERAADH 532
Score = 78.3 bits (193), Expect = 9e-15
Identities = 39/154 (25%), Positives = 56/154 (36%), Gaps = 25/154 (16%)
Query: 853 WECSLRHFTFTIYHPTSTCKMGPPT-DPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNP 911
+R + S P DP + R G+R + I+ P
Sbjct: 386 HVGPMRPKSRGSVTLRSPDPDNRPVIDPNYLSAEGDRAIFRAGIR-LTREIIGQ-----P 439
Query: 912 NAPTIMIGEK--GADMTSRYTIRPAL---------------MGPATDLEAVVDPRLRVYG 954
E G +T+ I A+ MG + V DP LRV+G
Sbjct: 440 ALDARRKAELAPGPRVTTDEDISAAIRFLARTAYHPMGTCRMG-SDPAAVVDDPYLRVHG 498
Query: 955 VDGLRVIDASIMPIIVSGNPNAPTIMIGEKGADM 988
++ LRV+DAS+MP NPN I + E+ AD
Sbjct: 499 LENLRVVDASVMPTSTGVNPNLTIIALAERAADH 532
Score = 58.6 bits (142), Expect = 1e-08
Identities = 33/112 (29%), Positives = 51/112 (45%), Gaps = 10/112 (8%)
Query: 478 HILVLSSGIGPEEHLQGLNIP-IIKNLSVGHNLQDHVGLGGLTFIVDGPV--TFKKERYQ 534
+L+LS GIGP +HL I + + VG NLQDH+ + + F P + +
Sbjct: 269 KLLLLS-GIGPADHLLEHGIDVVGRLPGVGQNLQDHLEI-YVAFEATEPTNDSVLSLFSK 326
Query: 535 TLSVALQYILNERGPLTSLGGVEGLAFVNTKYAPSGGDWPDVQFHFAPSSVN 586
A +Y+L GP + G + G++PD Q+HFAP +
Sbjct: 327 LGIGADRYLLTRDGPGATNHFEGGFV-----RSGPAGEYPDGQYHFAPLPLA 373
>gnl|CDD|233581 TIGR01810, betA, choline dehydrogenase. Choline dehydrogenase
catalyzes the conversion of exogenously supplied choline
into the intermediate glycine betaine aldehyde, as part
of a two-step oxidative reaction leading to the
formation of osmoprotectant betaine. This enzymatic
system can be found in both gram-positive and
gram-negative bacteria. As in Escherichia coli ,
Staphylococcus xylosus , and Sinorhizobium meliloti,
this enzyme is found associated in a transciptionally
co-induced gene cluster with betaine aldehyde
dehydrogenase, the second catalytic enzyme in this
reaction. Other gram-positive organisms have been shown
to employ a different enzymatic system, utlizing a
soluable choline oxidase or type III alcohol
dehydrogenase instead of choline dehydrogenase. This
enzyme is a member of the GMC oxidoreductase family
(pfam00732 and pfam05199), sharing a common
evoluntionary origin and enzymatic reaction with alcohol
dehydrogenase. Outgrouping from this model, Caulobacter
crescentus shares sequence homology with choline
dehydrogenase, yet other genes participating in this
enzymatic reaction have not currently been identified
[Cellular processes, Adaptations to atypical
conditions].
Length = 532
Score = 257 bits (657), Expect = 6e-75
Identities = 130/313 (41%), Positives = 171/313 (54%), Gaps = 33/313 (10%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEAGGDENEISDIP---------SLAGYLQLS 142
D+I+IG GSAG+V+A RLSE+ +L++EAGG SD P +LA
Sbjct: 1 DYIIIGGGSAGSVLAGRLSEDVSNSVLVLEAGG-----SDYPWDLLIQMPAALAYPAGNK 55
Query: 143 ELDWKYKTEP-PMGDSAYCLAMVGDRCNWPRGKVLGGSSVLNAMIYVRGNKNDYDQWER- 200
+W Y+TEP P M R RGKVLGGSS +N MIY RGN DY++W +
Sbjct: 56 RYNWIYETEPEPH--------MNNRRVGHARGKVLGGSSSINGMIYQRGNPMDYEKWAKP 107
Query: 201 LGNPGWGYKDVLPYFKKSEDNRNEYLLRTPYHSKGGYLTVQESPWHSPLAAAFVKAGEEL 260
G W Y D LPY+K+ E + PY G + V+ P +PL AF++AG E
Sbjct: 108 EGMESWDYADCLPYYKRLE---TTFGGEKPYRGHDGPIKVRRGPADNPLFQAFIEAGVEA 164
Query: 261 GYE-NRDINGERQTGFMIAQGTIRRGSRCSTSKAFLRPIRLRKNLHIAMETQALRLLFDK 319
GY D+NG RQ GF T+ G R S ++A+L P R NL + ++ F+
Sbjct: 165 GYNKTPDVNGFRQEGFGPMDSTVHNGRRVSAARAYLHPAMKRPNLEVQTRAFVTKINFEG 224
Query: 320 SGPVPKAVGIEILRDGRKHIIRAKKEIISSAGAINSPQLLMVSGIGPEEHLQGLNIPIIK 379
+ +A G+E + GRK A KE+I SAGAINSPQLL +SGIG EHL+ L I
Sbjct: 225 N----RATGVEFKKGGRKEHTEANKEVILSAGAINSPQLLQLSGIGDAEHLRELGIEPRI 280
Query: 380 NL-SVGHNLQDHV 391
+L VG NLQDH+
Sbjct: 281 HLPGVGENLQDHL 293
Score = 131 bits (331), Expect = 7e-32
Identities = 59/143 (41%), Positives = 81/143 (56%), Gaps = 6/143 (4%)
Query: 783 YIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRIAFNVSASAAFQKYNSRPLLTPMPGC 842
+++++SK+P P I NY H D E IR+ + A Y + +P P
Sbjct: 389 HVKIKSKDPFEKPEIVFNYMSHEEDWREFREAIRVTREILKQKALDPYRGGEI-SPGPEV 447
Query: 843 AMFELFSDEYWECSLRHFTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASI 902
+DE + +R T HP TCKMGP +D +VVDP RV+G++GLRV+DASI
Sbjct: 448 Q-----TDEEIDEFVRRHGETALHPCGTCKMGPASDEMSVVDPETRVHGMEGLRVVDASI 502
Query: 903 MPIIVSGNPNAPTIMIGEKGADM 925
MP I +GN NAP IM+GEK AD+
Sbjct: 503 MPRITNGNLNAPVIMMGEKAADI 525
Score = 83.0 bits (205), Expect = 3e-16
Identities = 35/53 (66%), Positives = 44/53 (83%)
Query: 936 MGPATDLEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKGADM 988
MGPA+D +VVDP RV+G++GLRV+DASIMP I +GN NAP IM+GEK AD+
Sbjct: 473 MGPASDEMSVVDPETRVHGMEGLRVVDASIMPRITNGNLNAPVIMMGEKAADI 525
Score = 59.9 bits (145), Expect = 4e-09
Identities = 35/113 (30%), Positives = 54/113 (47%), Gaps = 8/113 (7%)
Query: 480 LVLSSGIGPEEHLQGLNIPIIKNL-SVGHNLQDHVGLGGLTFIVDGPVTFKK--ERYQTL 536
L+ SGIG EHL+ L I +L VG NLQDH+ + + PV+ +
Sbjct: 259 LLQLSGIGDAEHLRELGIEPRIHLPGVGENLQDHLEVY-VQHACKQPVSLYPSLNWLKQP 317
Query: 537 SVALQYILNERGPLTSLGGVEGLAFVNTKYAPSGGDWPDVQFHFAPSSVNSDG 589
+ Q++ +G S EG FV + D+P++Q+HF P ++ DG
Sbjct: 318 FIGAQWLFGRKGAGAS-NHFEGGGFVRSN---DDVDYPNIQYHFLPVAIRYDG 366
Score = 38.3 bits (89), Expect = 0.021
Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 657 LVLSSGIGPEEHLQGLNIPIIKNL-SVGHNLQDHV 690
L+ SGIG EHL+ L I +L VG NLQDH+
Sbjct: 259 LLQLSGIGDAEHLRELGIEPRIHLPGVGENLQDHL 293
>gnl|CDD|234421 TIGR03970, Rv0697, dehydrogenase, Rv0697 family. This model
describes a set of dehydrogenases belonging to the
glucose-methanol-choline oxidoreductase (GMC
oxidoreductase) family. Members of the present family
are restricted to Actinobacterial genome contexts
containing also members of families TIGR03962 and
TIGR03969 (the mycofactocin system), and are proposed to
be uniform in function.
Length = 487
Score = 196 bits (501), Expect = 3e-54
Identities = 108/309 (34%), Positives = 162/309 (52%), Gaps = 29/309 (9%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEAGGDENEISDIPS-LAGYLQL-----SELD 145
D +V+G GSAG VVA RLSE+P + ++EAG + S +P+ L L+L S +
Sbjct: 2 DVLVVGGGSAGCVVAARLSEDPSCTVTVLEAGPGYRDPSRLPAQLTDGLRLPIGPASPVV 61
Query: 146 WKYKTEPPMGDSAYCLAMVGDRCNWPRGKVLGGSSVLNAMIYVRGNKNDYDQWERLGNPG 205
W+Y E G A+V RG+VLGGS +N + R D+D W PG
Sbjct: 62 WRYGVELTDGPRRA-SAIV-------RGRVLGGSGAVNGGYFCRALPADFDAWPI---PG 110
Query: 206 WGYKDVLPYFKKSEDNRNEYLLRTPYHSKGGYLTVQESPWHSPLAAAFVKAGEELGY-EN 264
W + DVLP+F+ E + + P H G + V+ + ++AAFV A G+
Sbjct: 111 WSWDDVLPHFRAIETDLD---FDGPLHGTAGPIPVRRTAELDGISAAFVAAALGAGFGWI 167
Query: 265 RDING---ERQTGFMIAQGTIRRGSRCSTSKAFLRPIRLRKNLHIAMETQALRLLFDKSG 321
D+NG + TG + G R ST+ A+L P R NL + +T+ +R+LF +
Sbjct: 168 ADLNGSGPDAPTGVGAVPLNVDGGRRVSTAVAYLLPALKRPNLTVEADTRVVRILFSGT- 226
Query: 322 PVPKAVGIEILRDGRKHIIRAKKEIISSAGAINSPQLLMVSGIGPEEHLQGLNIPIIKNL 381
+AVG+E+L DG +RA + ++ AGA+ S LL++SGIGP E L+ I ++ +L
Sbjct: 227 ---RAVGVEVLGDGGPRTLRADR-VVLCAGAVESAHLLLLSGIGPAEQLRAAGIAVVLDL 282
Query: 382 SVGHNLQDH 390
VG + DH
Sbjct: 283 PVGSDFVDH 291
Score = 102 bits (257), Expect = 7e-23
Identities = 76/273 (27%), Positives = 102/273 (37%), Gaps = 47/273 (17%)
Query: 653 SCHILVLSSGIGPEEHLQGLNIPIIKNLSVGHNLQDH--VGLGGLTFIVDGPVTFKKERY 710
S H+L+LS GIGP E L+ I ++ +L VG + DH L P ++
Sbjct: 256 SAHLLLLS-GIGPAEQLRAAGIAVVLDLPVGSDFVDHPEWVL---------PYRWRPTH- 304
Query: 711 QVLLCLSERTDDSTYSTYTNTLFPRYIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRI 770
+R D S IR P R D + +
Sbjct: 305 -------DRPDTSPVLETVLNTADIEIR-----PYTAGFTALVPGSPRDD-----PHLGV 347
Query: 771 AFNVSASAAFKKYIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRIAFNVSASAAFQKY 830
A S IRL S +P P IE Y D L G +A
Sbjct: 348 ALMRPHSRG---RIRLASADPADPPRIEHRYDSSAADRAALRAGAALAHE---------- 394
Query: 831 NSRPLLTPMPGCAMFELFSDEYWECSLRHFTFTIYHPTSTCKMGPPTDPEAVVDPRLRVY 890
LL + E E + T H +C+MG DP AVVD R RV
Sbjct: 395 ----LLGSPELGPLLEPAVREGEASWVLARLATSQHLCGSCRMGGRDDPGAVVDARCRVR 450
Query: 891 GVDGLRVIDASIMPIIVSGNPNAPTIMIGEKGA 923
GV+GL V+D SI+P+I S P+A +M+ E+ A
Sbjct: 451 GVEGLWVVDGSILPVIPSRGPHATAVMVAERAA 483
Score = 64.1 bits (156), Expect = 2e-10
Identities = 28/61 (45%), Positives = 38/61 (62%)
Query: 926 TSRYTIRPALMGPATDLEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKG 985
TS++ MG D AVVD R RV GV+GL V+D SI+P+I S P+A +M+ E+
Sbjct: 423 TSQHLCGSCRMGGRDDPGAVVDARCRVRGVEGLWVVDGSILPVIPSRGPHATAVMVAERA 482
Query: 986 A 986
A
Sbjct: 483 A 483
Score = 39.8 bits (93), Expect = 0.007
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 476 SCHILVLSSGIGPEEHLQGLNIPIIKNLSVGHNLQDH 512
S H+L+LS GIGP E L+ I ++ +L VG + DH
Sbjct: 256 SAHLLLLS-GIGPAEQLRAAGIAVVLDLPVGSDFVDH 291
>gnl|CDD|216089 pfam00732, GMC_oxred_N, GMC oxidoreductase. This family of
proteins bind FAD as a cofactor.
Length = 218
Score = 174 bits (444), Expect = 1e-49
Identities = 80/234 (34%), Positives = 106/234 (45%), Gaps = 41/234 (17%)
Query: 165 GDRCNWPRGKVLGGSSVLNAMIYVRGNKNDYDQWERL-GNPGWGYKDVLPYFKKSEDNRN 223
G R P G +GG S +N +R D+W G GWGY D LPY K E
Sbjct: 16 GRRMILPAGSTVGGGSSVNWSACIRTPAAVLDEWASEFGLEGWGYDDYLPYMDKVE---- 71
Query: 224 EYLLRTPYHSKGGYLTVQES-PWHSPLAAAFVKAGEELGYE----NRDINGERQTGFMIA 278
G L V SPL A +KA EELGY R+ NG GF
Sbjct: 72 ------------GPLGVTTKGIEESPLNQALLKAAEELGYPVEAVPRNSNGCHYCGFCGL 119
Query: 279 QGTIRRGSRCSTSKAFLRPIRLRKNLHIAMETQALRLLFDKSGPVPKAVGIEILRD--GR 336
G++ ST++ +LRP L +NL I +A +++ G +AVG+E G
Sbjct: 120 G--CPTGAKQSTARTWLRPA-LERNLRILTGAKAEKIIILGRGG--RAVGVEARDGGGGI 174
Query: 337 KHIIRAKKEIISSAGAINSPQLLMVSGIGPEEHLQGLNIPIIKNLSVGHNLQDH 390
K +I A KE++ +AGA+N+P LL+ SG+G H VG NLQ H
Sbjct: 175 KRLITAAKEVVVAAGALNTPPLLLRSGLGKNPH------------PVGKNLQLH 216
Score = 30.3 bits (69), Expect = 4.4
Identities = 12/33 (36%), Positives = 14/33 (42%), Gaps = 12/33 (36%)
Query: 480 LVLSSGIGPEEHLQGLNIPIIKNLSVGHNLQDH 512
L+L SG+G H VG NLQ H
Sbjct: 196 LLLRSGLGKNPH------------PVGKNLQLH 216
Score = 30.3 bits (69), Expect = 4.4
Identities = 12/33 (36%), Positives = 14/33 (42%), Gaps = 12/33 (36%)
Query: 657 LVLSSGIGPEEHLQGLNIPIIKNLSVGHNLQDH 689
L+L SG+G H VG NLQ H
Sbjct: 196 LLLRSGLGKNPH------------PVGKNLQLH 216
>gnl|CDD|218493 pfam05199, GMC_oxred_C, GMC oxidoreductase. This domain found
associated with pfam00732.
Length = 139
Score = 160 bits (407), Expect = 1e-45
Identities = 50/140 (35%), Positives = 70/140 (50%), Gaps = 6/140 (4%)
Query: 783 YIRLQSKNPLHYPLIEPNYFQHRRDIETLIEGIRIAFNVSASAAFQKYNSRPLLTPMPGC 842
+ L S +PL P+I+PNY D+ L +R+A + A+A + P P+
Sbjct: 6 RVTLSSSDPLGLPVIDPNYLSDPADLAALRAALRLARRILAAALVELT---PG--PVEVV 60
Query: 843 AMFELFSDEYWECSLRHFTFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASI 902
SD+ +R T +HP TC+MG D VVDP LRV+GVD LRV+DAS+
Sbjct: 61 PGAAEASDDEILEYIRAAAVTSWHPMGTCRMGADPDD-GVVDPDLRVHGVDNLRVVDASV 119
Query: 903 MPIIVSGNPNAPTIMIGEKG 922
P SGNP + E+
Sbjct: 120 FPSSPSGNPTLTIYALAERA 139
Score = 85.5 bits (212), Expect = 2e-19
Identities = 25/50 (50%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 936 MGPATDLEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIGEKG 985
MG D + VVDP LRV+GVD LRV+DAS+ P SGNP + E+
Sbjct: 91 MGADPD-DGVVDPDLRVHGVDNLRVVDASVFPSSPSGNPTLTIYALAERA 139
>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
Length = 587
Score = 93.3 bits (232), Expect = 2e-19
Identities = 92/314 (29%), Positives = 147/314 (46%), Gaps = 56/314 (17%)
Query: 90 AYDFIVIGAGSAGAVVANRLSENPDWKILLIEAGGDENEISDIPSLAGY-LQLSELDWKY 148
AYD+IV+G G+AG +A LS+N + +LL+E GG +++ L + + L++
Sbjct: 55 AYDYIVVGGGTAGCPLAATLSQN--FSVLLLERGGVPFGNANVSFLENFHIGLAD----- 107
Query: 149 KTEPPMGDSAYCLAMVGDRCNWPRGKVLGGSSVLNAMIYVRGNKNDYDQWERLGNPGWGY 208
T P SA + D R +VLGG + +NA Y R + + GW
Sbjct: 108 -TSP---TSASQAFISTDGVINARARVLGGGTCINAGFYSRASTR------FIQKAGWDA 157
Query: 209 KDVLPYFKKSEDNRNEYLLRTPYHSKGGYLTVQESPWHSPLAAAFVKAGEEL--GYENRD 266
K V +S ++ P + +PW + L + ++ G G+
Sbjct: 158 KLV----NESYPWVERQIVHWP----------KVAPWQAALRDSLLEVGVSPFNGFTYDH 203
Query: 267 INGERQTGFMIAQGTI--RRGSRCSTSK--AFLRPIRLRKNLHIAMETQALRLLFDKSGP 322
+ G + GTI G R + ++ A P +LR LH ++ +++FD SG
Sbjct: 204 VYGTK------VGGTIFDEFGRRHTAAELLAAGNPNKLRVLLHATVQ----KIVFDTSGK 253
Query: 323 VPKAVGIEILRD--GRKHII----RAKKEIISSAGAINSPQLLMVSGIGPEEHLQGLNIP 376
P+A G+ I +D G +H EII SAGAI SPQ+L++SGIGP++ L+ IP
Sbjct: 254 RPRATGV-IFKDENGNQHQAFLSNNKGSEIILSAGAIGSPQMLLLSGIGPKKELKKHKIP 312
Query: 377 II-KNLSVGHNLQD 389
++ N VG + D
Sbjct: 313 VVLHNEHVGKGMAD 326
Score = 58.7 bits (142), Expect = 1e-08
Identities = 79/304 (25%), Positives = 112/304 (36%), Gaps = 69/304 (22%)
Query: 657 LVLSSGIGPEEHLQGLNIPIIKNLSVGHNLQDHVGLGGLTFIVDGP-----VTFKKERYQ 711
++L SGIGP++ L+ IP+ V HN +HVG G + D P V K Q
Sbjct: 294 MLLLSGIGPKKELKKHKIPV-----VLHN--EHVGKG----MADNPMNSIFVPSKAPVEQ 342
Query: 712 VLLCLSERTDDSTYSTYTNTLFPRYIRLQSKNPLHY------------PLIEPNYFQHRR 759
L+ T Y ++ F QS + +H I P +R
Sbjct: 343 SLIQTVGITKMGVY-IEASSGFG-----QSPDSIHCHHGIMSAEIGQLSTIPPK----QR 392
Query: 760 DIETLIEGIRIAFNVSASAAFKKYIRLQSKNPL---HYPLIEP----------NYFQHRR 806
E + I N+ A +I + P+ H LI NYF+H +
Sbjct: 393 TPEAIQAYIHRKKNLPHEAFNGGFILEKIAGPISTGHLSLINTNVDDNPSVTFNYFKHPQ 452
Query: 807 DIETLIEGIRIAFNVSASAAFQ------KYNSRPLLTPMPGCAMFELFSDEYWEC-SLRH 859
D++ + GIR + + F K +L M A L + SL
Sbjct: 453 DLQRCVYGIRTIEKIVKTNHFTNFTQCDKQTMEKVLN-MSVKANINLIPKHTNDTKSLEQ 511
Query: 860 F----TFTIYHPTSTCKMGPPTDPEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPT 915
F TI+H C +G VVD +V GV LRVID S NP A
Sbjct: 512 FCKDTVITIWHYHGGCHVG------KVVDQNYKVLGVSRLRVIDGSTFDESPGTNPQATV 565
Query: 916 IMIG 919
+M+G
Sbjct: 566 MMMG 569
Score = 41.3 bits (97), Expect = 0.003
Identities = 17/38 (44%), Positives = 20/38 (52%)
Query: 945 VVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAPTIMIG 982
VVD +V GV LRVID S NP A +M+G
Sbjct: 532 VVDQNYKVLGVSRLRVIDGSTFDESPGTNPQATVMMMG 569
Score = 30.9 bits (70), Expect = 4.1
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 480 LVLSSGIGPEEHLQGLNIPII-KNLSVGHNLQD 511
++L SGIGP++ L+ IP++ N VG + D
Sbjct: 294 MLLLSGIGPKKELKKHKIPVVLHNEHVGKGMAD 326
>gnl|CDD|185420 PTZ00058, PTZ00058, glutathione reductase; Provisional.
Length = 561
Score = 41.9 bits (98), Expect = 0.002
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 72 YNNMDPESRPTNTKTLLR-AYDFIVIGAGSAGAVVANRLSENPDWKILLIE 121
Y+N++ S PT+ K R YD IVIG GS G A R + N K+ L+E
Sbjct: 29 YHNLEASSAPTHLKKKPRMVYDLIVIGGGSGGMAAARRAARNK-AKVALVE 78
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 41.0 bits (97), Expect = 0.003
Identities = 16/34 (47%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEAGG 124
YD +VIGAG AG V A R ++ K+ L+E G
Sbjct: 5 YDVVVIGAGPAGYVAAIRAAQL-GLKVALVEKGE 37
>gnl|CDD|235774 PRK06292, PRK06292, dihydrolipoamide dehydrogenase; Validated.
Length = 460
Score = 40.9 bits (97), Expect = 0.003
Identities = 18/35 (51%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 89 RAYDFIVIGAGSAGAVVANRLSENPDWKILLIEAG 123
YD IVIGAG AG V A R ++ K+ LIE G
Sbjct: 2 EKYDVIVIGAGPAGYVAARRAAKLGK-KVALIEKG 35
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 39.8 bits (94), Expect = 0.007
Identities = 18/38 (47%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEA---GGD 125
YD IVIGAG AG +A R + K+ LIE GG
Sbjct: 6 YDAIVIGAGQAGPPLAARAAG-LGMKVALIERGLLGGT 42
>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 = 39.1 bits (92), Expect = 0.010
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEAG 123
D +++G G G +A L+ + K+ LIEA
Sbjct: 1 DIVIVGGGPVGLALALALARSGGLKVALIEAT 32
>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 = 37.3 bits (87), Expect = 0.023
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEAGG 124
D +VIG G G A L+ + L+E G
Sbjct: 1 DVVVIGGGIVGLSTAYELAR-RGLSVTLLERGD 32
>gnl|CDD|180854 PRK07121, PRK07121, hypothetical protein; Validated.
Length = 492
Score = 37.9 bits (89), Expect = 0.024
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 300 LRKNLHIAMETQALRLLFDKSGPVPKAVGIEILRDGRKHIIRAKKEIISSAG 351
+ I +T+A RL+ D G V VG+E R G IRA+K ++ +AG
Sbjct: 188 AALGVQIRYDTRATRLIVDDDGRV---VGVEARRYGETVAIRARKGVVLAAG 236
>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 = 37.0 bits (86), Expect = 0.035
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEAGG 124
D ++IG G AG A RL+ K+ LIE G
Sbjct: 1 DVVIIGGGPAGLAAAIRLA-RLGLKVALIEREG 32
>gnl|CDD|223652 COG0579, COG0579, Predicted dehydrogenase [General function
prediction only].
Length = 429
Score = 37.3 bits (87), Expect = 0.039
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 91 YDFIVIGAGSAGAVVANRLSE-NPDWKILLIE 121
YD ++IG G GA A LSE PD + L+E
Sbjct: 4 YDVVIIGGGIMGAATAYELSEYEPDLSVALLE 35
>gnl|CDD|130849 TIGR01789, lycopene_cycl, lycopene cyclase. This model represents
a family of bacterial lycopene cyclases catalyzing the
transformation of lycopene to carotene. These enzymes
are found in a limited spectrum of alpha and gamma
proteobacteria as well as Flavobacterium.
Length = 370
Score = 37.2 bits (86), Expect = 0.043
Identities = 16/33 (48%), Positives = 23/33 (69%), Gaps = 1/33 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSE-NPDWKILLIEAG 123
D I++G G AG ++A RL PD++I +IEAG
Sbjct: 1 DCIIVGGGLAGGLIALRLQRARPDFRIRVIEAG 33
>gnl|CDD|178267 PLN02661, PLN02661, Putative thiazole synthesis.
Length = 357
Score = 37.1 bits (86), Expect = 0.045
Identities = 15/30 (50%), Positives = 22/30 (73%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIE 121
D +++GAGSAG A LS+NP+ K+ +IE
Sbjct: 94 DVVIVGAGSAGLSCAYELSKNPNVKVAIIE 123
>gnl|CDD|218770 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 = 36.9 bits (86), Expect = 0.051
Identities = 15/33 (45%), Positives = 24/33 (72%), Gaps = 1/33 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSEN-PDWKILLIEAG 123
D +++GAG AG ++A RL + P ++LLI+AG
Sbjct: 1 DLVIVGAGLAGLLLALRLRQARPGLRVLLIDAG 33
>gnl|CDD|235758 PRK06263, sdhA, succinate dehydrogenase flavoprotein subunit;
Reviewed.
Length = 543
Score = 36.9 bits (86), Expect = 0.064
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 301 RKNLHIAMETQALRLLFDKSGPVPKAVGIEILRDGRKHIIRAKKEIISSAGA 352
++ + I E A++L+ D++ V A+ ++ LR+G I AK I+++ GA
Sbjct: 146 KERIKILEEVMAIKLIVDENREVIGAIFLD-LRNGEIFPIYAKATILATGGA 196
>gnl|CDD|205628 pfam13450, NAD_binding_8, NAD(P)-binding Rossmann-like domain.
Length = 66
Score = 33.2 bits (77), Expect = 0.066
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 95 VIGAGSAGAVVANRLSENPDWKILLIEAGGD 125
++GAG +G V A L++ +L++E
Sbjct: 1 IVGAGLSGLVAAYLLAKR-GKDVLVLEKRDR 30
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 36.0 bits (83), Expect = 0.11
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 90 AYDFIVIGAGSAGAVVANRLSENPDWKILLIEAGG 124
D ++IG G G A L+E + ++EAG
Sbjct: 4 KMDVVIIGGGIVGLSAAYYLAERG-ADVTVLEAGE 37
>gnl|CDD|233669 TIGR01984, UbiH, 2-polyprenyl-6-methoxyphenol 4-hydroxylase. This
model represents the FAD-dependent monoxygenase
responsible for the second hydroxylation step in the
aerobic ubiquinone bioynthetic pathway. The scope of
this model is limited to the proteobacteria. This family
is closely related to the UbiF hydroxylase which
catalyzes the final hydroxylation step. The enzyme has
also been named VisB due to a mutant VISible light
sensitive phenotype [Biosynthesis of cofactors,
prosthetic groups, and carriers, Menaquinone and
ubiquinone].
Length = 382
Score = 35.0 bits (81), Expect = 0.18
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
D I++G G G +A LS KI LIEA
Sbjct: 1 DVIIVGGGLVGLSLALALSRLGKIKIALIEA 31
>gnl|CDD|223981 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase,
flavoprotein subunit [Energy production and conversion].
Length = 562
Score = 35.0 bits (81), Expect = 0.20
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 301 RKNLHIAMETQALRLLFDKSGPVPKAVGIEILRDGRKHIIRAKKEIISSAGA 352
+ I E L LL D G V V + LR G ++ RAK I+++ GA
Sbjct: 151 FSGIEIFDEYFVLDLLVDDGGGVAGVVARD-LRTGELYVFRAKAVILATGGA 201
>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
[Energy metabolism, Electron transport].
Length = 450
Score = 34.4 bits (79), Expect = 0.34
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 89 RAYDFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
+ YD++VIG GS G A R +E+ K LL+EA
Sbjct: 1 KHYDYLVIGGGSGGIASARRAAEH-GAKALLVEA 33
>gnl|CDD|232791 TIGR00031, UDP-GALP_mutase, UDP-galactopyranose mutase. This
enzyme is involved in the conversion of UDP-GALP into
UDP-GALF through a 2-keto intermediate. It contains FAD
as a cofactor. The gene is known as glf, ceoA, and rfbD.
It is known experimentally in E. coli, Mycobacterium
tuberculosis, and Klebsiella pneumoniae [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 377
Score = 34.0 bits (78), Expect = 0.36
Identities = 12/31 (38%), Positives = 24/31 (77%), Gaps = 1/31 (3%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIE 121
+D+I++GAG +G V+AN L+ + ++L++E
Sbjct: 2 FDYIIVGAGLSGIVLANILA-QLNKRVLVVE 31
>gnl|CDD|234978 PRK01747, mnmC, bifunctional tRNA
(mnm(5)s(2)U34)-methyltransferase/FAD-dependent
cmnm(5)s(2)U34 oxidoreductase; Reviewed.
Length = 662
Score = 34.4 bits (80), Expect = 0.37
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
D +IG G AGA +A L+ W++ L EA
Sbjct: 262 DAAIIGGGIAGAALALALARR-GWQVTLYEA 291
>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 = 33.9 bits (78), Expect = 0.38
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEAG 123
D VIG G AG +A L+ P ++ LIE
Sbjct: 1 DLAVIGGGPAGLAIALELAR-PGLRVQLIEPH 31
>gnl|CDD|215362 PLN02676, PLN02676, polyamine oxidase.
Length = 487
Score = 34.3 bits (79), Expect = 0.40
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 10/68 (14%)
Query: 55 AMLGILPVVMAALTVLRYNNMDPESRPTNTKTLLRAYDFIVIGAGSAGAVVANRLSENPD 114
+L + V+ A+ + MD + P+ I++GAG +G A LSE
Sbjct: 1 MLLLLSLSVLLAVHLFAVAAMDAKPSPS----------VIIVGAGMSGISAAKTLSEAGI 50
Query: 115 WKILLIEA 122
IL++EA
Sbjct: 51 EDILILEA 58
>gnl|CDD|223636 COG0562, Glf, UDP-galactopyranose mutase [Cell envelope biogenesis,
outer membrane].
Length = 374
Score = 33.8 bits (78), Expect = 0.41
Identities = 10/32 (31%), Positives = 23/32 (71%), Gaps = 1/32 (3%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
+D++++GAG +GAV+A ++ ++L++E
Sbjct: 2 FDYLIVGAGLSGAVIAEVAAQL-GKRVLIVEK 32
>gnl|CDD|183292 PRK11728, PRK11728, hydroxyglutarate oxidase; Provisional.
Length = 393
Score = 33.6 bits (78), Expect = 0.51
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 90 AYDFIVIGAGSAGAVVANRLSE-NPDWKILLIE 121
YDF++IG G G A +L E P +I ++E
Sbjct: 2 MYDFVIIGGGIVGLSTAMQLQERYPGARIAVLE 34
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 33.2 bits (76), Expect = 0.71
Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEAGG 124
YD +++GAG AG+ A RL++ +L++E G
Sbjct: 4 YDVVIVGAGPAGSSAARRLAKA-GLDVLVLEKGS 36
>gnl|CDD|181346 PRK08275, PRK08275, putative oxidoreductase; Provisional.
Length = 554
Score = 33.5 bits (77), Expect = 0.72
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 84 TKTLLRAYDFIVIGAGSAGAVVANRLSE-NPDWKILLIE 121
T D +VIG G+AG + A + E NP ++LL+E
Sbjct: 3 MNTQEVETDILVIGGGTAGPMAAIKAKERNPALRVLLLE 41
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 32.4 bits (75), Expect = 1.2
Identities = 12/18 (66%), Positives = 12/18 (66%)
Query: 91 YDFIVIGAGSAGAVVANR 108
YD IVIG GS G ANR
Sbjct: 5 YDLIVIGGGSGGIASANR 22
>gnl|CDD|216872 pfam02096, 60KD_IMP, 60Kd inner membrane protein.
Length = 193
Score = 31.7 bits (73), Expect = 1.4
Identities = 9/49 (18%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 20 LGILPVVMAALTVLRYNNMDPESRPTNTKTDKVTAAMLGILPVVMAALT 68
ILP++ L + P P + + M+ I+P++
Sbjct: 116 YFILPILAGLTMFL-QQKLSPSQDPPDLQQSAQMKIMMYIMPLIFLFFF 163
>gnl|CDD|233702 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 [Central intermediary metabolism, Sulfur
metabolism].
Length = 614
Score = 32.5 bits (74), Expect = 1.4
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 3/43 (6%)
Query: 314 RLLFDKSGP--VPKAVGIEILRDGRKHIIRAKKEIISSAGAIN 354
+LL DK+ P + AVG +R H+ +AK I+++ GA+N
Sbjct: 151 KLLLDKNTPNRIAGAVGFN-VRANEVHVFKAKTVIVAAGGAVN 192
>gnl|CDD|223189 COG0111, SerA, Phosphoglycerate dehydrogenase and related
dehydrogenases [Amino acid transport and metabolism].
Length = 324
Score = 31.9 bits (73), Expect = 1.5
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 918 IGEKGADMTSRYTIRPALMGPATDLEAVVDPRLRVYGVDGLRVIDASIMPIIVSGNPNAP 977
+ + A + S + ++ A +L+A+ R GVD + + A+ I+V P
Sbjct: 43 LADADALIVSVTPVTEEVLAAAPNLKAIG--RAGA-GVDNIDLEAATKRGILVVNAPGGN 99
Query: 978 TIMIGE 983
I + E
Sbjct: 100 AISVAE 105
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 31.5 bits (72), Expect = 1.5
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 94 IVIGAGSAGAVVANRLSENPDWKILLIEAGGD 125
+V+GAG+AG A+ L + D +++++ G
Sbjct: 1 LVVGAGAAGMAFADHLLDLGDAPVIIVDRGAQ 32
>gnl|CDD|178082 PLN02463, PLN02463, lycopene beta cyclase.
Length = 447
Score = 32.0 bits (73), Expect = 1.6
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 89 RAYDFIVIGAGSAGAVVANRLSE 111
R D +V+G G AG VA ++SE
Sbjct: 27 RVVDLVVVGGGPAGLAVAQQVSE 49
>gnl|CDD|215308 PLN02568, PLN02568, polyamine oxidase.
Length = 539
Score = 32.1 bits (73), Expect = 1.7
Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 4/34 (11%)
Query: 94 IVIGAGSAGAVVANRL----SENPDWKILLIEAG 123
++IGAG AG AN+L + N +++ ++E G
Sbjct: 9 VIIGAGMAGLTAANKLYTSSAANDMFELTVVEGG 42
>gnl|CDD|225307 COG2509, COG2509, Uncharacterized FAD-dependent dehydrogenases
[General function prediction only].
Length = 486
Score = 32.3 bits (74), Expect = 1.7
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 5/63 (7%)
Query: 85 KTLLRAYDFIVIGAGSAGAVVANRLSE----NPDWKILLIEAGGDENEISDIPSLAGYLQ 140
+ A D +++GAG AG A LS P KI +++ G D E P L+
Sbjct: 13 ALMNAALDVVIVGAGPAGLFAAYELSGDARKVPILKIYVVDVGLD-IEQRLCPKDEKKLE 71
Query: 141 LSE 143
Sbjct: 72 KCP 74
>gnl|CDD|181142 PRK07846, PRK07846, mycothione reductase; Reviewed.
Length = 451
Score = 31.8 bits (73), Expect = 1.8
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEAG 123
YD I+IG GS +++ R + D +I ++E G
Sbjct: 2 YDLIIIGTGSGNSILDERFA---DKRIAIVEKG 31
>gnl|CDD|235798 PRK06416, PRK06416, dihydrolipoamide dehydrogenase; Reviewed.
Length = 462
Score = 32.0 bits (74), Expect = 1.9
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDWKILLIEAG 123
YD IVIGAG G V A R ++ K+ ++E
Sbjct: 5 YDVIVIGAGPGGYVAAIRAAQL-GLKVAIVEKE 36
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 31.8 bits (72), Expect = 2.1
Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 93 FIVIGAGSAGAVVANRL-SENPDWKILLIEAG 123
+++G G+AG A L +I LI
Sbjct: 1 IVIVGGGAAGLSAATTLRRLLLAAEITLIGRE 32
>gnl|CDD|216847 pfam02016, Peptidase_S66, LD-carboxypeptidase.
Muramoyl-tetrapeptide carboxypeptidase hydrolyses a
peptide bond between a di-basic amino acid and the
C-terminal D-alanine in the tetrapeptide moiety in
peptidoglycan. This cleaves the bond between an L- and a
D-amino acid. The function of this activity is in murein
recycling. This family also includes the microcin c7
self-immunity protein. This family corresponds to Merops
family S66.
Length = 281
Score = 31.4 bits (72), Expect = 2.1
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 367 EEHLQGLNIPIIKNLSVGH 385
EE L L IP++ L GH
Sbjct: 247 EEVLGDLGIPVLYGLPFGH 265
Score = 31.4 bits (72), Expect = 2.1
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 489 EEHLQGLNIPIIKNLSVGH 507
EE L L IP++ L GH
Sbjct: 247 EEVLGDLGIPVLYGLPFGH 265
Score = 31.4 bits (72), Expect = 2.1
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 666 EEHLQGLNIPIIKNLSVGH 684
EE L L IP++ L GH
Sbjct: 247 EEVLGDLGIPVLYGLPFGH 265
>gnl|CDD|233672 TIGR01989, COQ6, ubiquinone biosynthesis monooxygenase COQ6. This
model represents the monooxygenase responsible for the
4-hydroxylateion of the phenol ring in the aerobic
biosynthesis of ubiquinone.
Length = 437
Score = 31.6 bits (72), Expect = 2.3
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 91 YDFIVIGAGSAGAVVANRLSENP---DWKILLIEAGGDENEISDIPSLAG 137
+D +++G G G +A L NP D K+LL++A D P L
Sbjct: 1 FDVVIVGGGPVGLALAAALGNNPLTKDLKVLLLDAV-------DNPKLKS 43
>gnl|CDD|145231 pfam01946, Thi4, Thi4 family. This family includes a putative
thiamine biosynthetic enzyme.
Length = 229
Score = 30.9 bits (70), Expect = 3.2
Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 11/49 (22%)
Query: 84 TKTLLRAY----------DFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
++ + Y D +++GAG +G A L++ K+ +IE
Sbjct: 1 SRAITERYFEDLLDYAESDVVIVGAGPSGLTAAYYLAKK-GLKVAIIER 48
>gnl|CDD|183983 PRK13339, PRK13339, malate:quinone oxidoreductase; Reviewed.
Length = 497
Score = 31.2 bits (71), Expect = 3.2
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSE-NPDWKILLIE 121
D +++GAG L E +PDW I ++E
Sbjct: 8 DVVLVGAGILSTTFGVLLKELDPDWNIEVVE 38
>gnl|CDD|224550 COG1635, THI4, Ribulose 1,5-bisphosphate synthetase, converts PRPP
to RuBP, flavoprotein [Carbohydrate transport and
metabolism].
Length = 262
Score = 30.8 bits (70), Expect = 3.2
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 92 DFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
D I++GAG +G A L++ K+ + E
Sbjct: 32 DVIIVGAGPSGLTAAYYLAKA-GLKVAIFER 61
>gnl|CDD|215314 PLN02576, PLN02576, protoporphyrinogen oxidase.
Length = 496
Score = 31.1 bits (71), Expect = 3.3
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 89 RAYDFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
+ D V+GAG +G A L+ +L+ EA
Sbjct: 11 SSKDVAVVGAGVSGLAAAYALASKHGVNVLVTEA 44
>gnl|CDD|224992 COG2081, COG2081, Predicted flavoproteins [General function
prediction only].
Length = 408
Score = 31.0 bits (71), Expect = 3.5
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 89 RAYDFIVIGAGSAGAVVANRLSENPDWKILLIEAG 123
+D I+IG G AG + A ++ ++LLI+ G
Sbjct: 2 ERFDVIIIGGGPAGLMAAISAAK-AGRRVLLIDKG 35
>gnl|CDD|132882 cd07025, Peptidase_S66, LD-Carboxypeptidase, a serine protease,
includes microcin C7 self immunity protein.
LD-carboxypeptidase (Muramoyltetrapeptide
carboxypeptidase; EC 3.4.17.13; Merops family S66;
initially described as Carboxypeptidase II) family also
includes the microcin c7 self-immunity protein (MccF) as
well as uncharacterized proteins including hypothetical
proteins. LD-carboxypeptidase hydrolyzes the amide bond
that links the dibasic amino acids to C-terminal
D-amino acids. The physiological substrates of
LD-carboxypeptidase are tetrapeptide fragments (such as
UDP-MurNAc-tetrapeptides) that are produced when
bacterial cell walls are degraded; they contain an
L-configured residue (L-lysine or meso-diaminopimelic
acid residue) as the penultimate residue and D-alanine
as the ultimate residue. A possible role of
LD-carboxypeptidase is in peptidoglycan recycling
whereby the resulting tripeptide (precursor for murein
synthesis) can be reconverted into peptidoglycan by
attachment of preformed D-Ala-D-Ala dipeptides. Some
enzymes possessing LD-carboxypeptidase activity also act
as LD-transpeptidase by replacing the terminal D-Ala
with another D-amino acid. MccF contributes to
self-immunity towards microcin C7 (MccC7), a ribosomally
encoded peptide antibiotic that contains a
phosphoramidate linkage to adenosine monophosphate at
its C-terminus. Its possible biological role is to
defend producer cells against exogenous microcin from
re-entering after having been exported. It is suggested
that MccF is involved in microcin degradation or
sequestration in the periplasm.
Length = 282
Score = 30.6 bits (70), Expect = 3.6
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 367 EEHLQGLNIPIIKNLSVGH 385
+E L L IP++ L +GH
Sbjct: 250 KEVLGDLGIPVLYGLPIGH 268
Score = 30.6 bits (70), Expect = 3.6
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 489 EEHLQGLNIPIIKNLSVGH 507
+E L L IP++ L +GH
Sbjct: 250 KEVLGDLGIPVLYGLPIGH 268
Score = 30.6 bits (70), Expect = 3.6
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 666 EEHLQGLNIPIIKNLSVGH 684
+E L L IP++ L +GH
Sbjct: 250 KEVLGDLGIPVLYGLPIGH 268
>gnl|CDD|235905 PRK06996, PRK06996, hypothetical protein; Provisional.
Length = 398
Score = 30.8 bits (70), Expect = 3.9
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 91 YDFIVIGAGSAGAVVANRLSENPDW---KILLIEAGGDENEISDIPSLA 136
+D ++GAG G +A L+ I LI+A +D ++A
Sbjct: 12 FDIAIVGAGPVGLALAGWLARRSATRALSIALIDAREPAASANDPRAIA 60
>gnl|CDD|236001 PRK07364, PRK07364, 2-octaprenyl-6-methoxyphenyl hydroxylase;
Validated.
Length = 415
Score = 30.8 bits (70), Expect = 4.0
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 2/49 (4%)
Query: 75 MDPESRPTNTKTLLRA-YDFIVIGAGSAGAVVANRLSENPDWKILLIEA 122
+ + YD ++G G G +A L ++ +I LIEA
Sbjct: 2 TLTAATSPTLPSTRSLTYDVAIVGGGIVGLTLAAAL-KDSGLRIALIEA 49
>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 = 30.4 bits (69), Expect = 4.3
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 91 YDFIVIGAGSAGAVVANRLSE 111
YD +V+GAG AGA A RL++
Sbjct: 1 YDVVVVGAGPAGASAAYRLAD 21
>gnl|CDD|179979 PRK05257, PRK05257, malate:quinone oxidoreductase; Validated.
Length = 494
Score = 30.9 bits (71), Expect = 4.6
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 91 YDFIVIGAGSAGAVVANRLSE-NPDWKILLIE 121
D ++IG G A + L E P+W I + E
Sbjct: 6 TDVVLIGGGIMSATLGTLLKELEPEWSITMFE 37
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 28.7 bits (65), Expect = 6.6
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 93 FIVIGAGSAGAVVANRLSENPDWKILLIE 121
I+IG G G +A L E +++I+
Sbjct: 1 IIIIGYGRVGRSLAEELREG-GPDVVVID 28
>gnl|CDD|184104 PRK13513, PRK13513, putative outer membrane receptor; Provisional.
Length = 659
Score = 30.1 bits (68), Expect = 6.7
Identities = 9/41 (21%), Positives = 19/41 (46%)
Query: 94 IVIGAGSAGAVVANRLSENPDWKILLIEAGGDENEISDIPS 134
++ A S+ A A + + +++ A G + I D P+
Sbjct: 14 VIAAAISSQAYAAEKTNTATPTDTMVVTASGFQQRIQDAPA 54
>gnl|CDD|217590 pfam03486, HI0933_like, HI0933-like protein.
Length = 405
Score = 30.2 bits (69), Expect = 6.7
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 7/37 (18%)
Query: 91 YDFIVIGAGSAG---AVVANRLSENPDWKILLIEAGG 124
YD IVIG G+AG A+ A + ++LLI+ G
Sbjct: 1 YDVIVIGGGAAGLMAAISAAK----RGRRVLLIDKGK 33
>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 = 30.3 bits (69), Expect = 6.8
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 90 AYDFIVIGAGSAGAVVANRLSENPDWKILLIE 121
AYD IVIG G G V A R ++ K+ L+E
Sbjct: 1 AYDVIVIGGGPGGYVAAIRAAQL-GLKVALVE 31
>gnl|CDD|132883 cd07062, Peptidase_S66_mccF_like, Microcin C7 self-immunity protein
determines resistance to exogenous microcin C7.
Microcin C7 self-immunity protein (mccF): MccF, a
homolog of the LD-carboxypeptidase family, mediates
resistance against exogenously added microcin C7
(MccC7), a ribosomally-encoded peptide antibiotic that
contains a phosphoramidate linkage to adenosine
monophosphate at its C-terminus. The plasmid-encoded
mccF gene is transcribed in the opposite direction to
the other five genes (mccA-E) and is required for the
full expression of immunity but not for production. The
catalytic triad residues (Ser, His, Glu) of
LD-carboxypeptidase are also conserved in MccF, strongly
suggesting that MccF shares the hydrolytic activity with
LD-carboxypeptidases. Substrates of MccF have not been
deduced, but could likely be microcin C7 precursors. The
possible role of MccF is to defend producer cells
against exogenous microcin from re-entering after having
been exported. It is suggested that MccF is involved in
microcin degradation or sequestration in the periplasm.
Length = 308
Score = 29.8 bits (68), Expect = 7.1
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 367 EEHLQGLNIPIIKNLSVGHN 386
E L L+IPI+ ++ GH
Sbjct: 275 LEVLGDLDIPIVYDVDFGHT 294
Score = 29.8 bits (68), Expect = 7.1
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 489 EEHLQGLNIPIIKNLSVGHN 508
E L L+IPI+ ++ GH
Sbjct: 275 LEVLGDLDIPIVYDVDFGHT 294
Score = 29.8 bits (68), Expect = 7.1
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 666 EEHLQGLNIPIIKNLSVGHN 685
E L L+IPI+ ++ GH
Sbjct: 275 LEVLGDLDIPIVYDVDFGHT 294
>gnl|CDD|233123 TIGR00770, Dcu, anaerobic c4-dicarboxylate membrane transporter
family protein. These proteins are members of th
C4-Dicarboxylate Uptake (Dcu) Family (TC 2.A.13). Most
proteins in this family have 12 GES predicted
transmembrane regions; however one member has 10
experimentally determined transmembrane regions with
both the N- and C-termini localized to the periplasm.
The two Escherichia coli proteins, DcuA and DcuB,
transport aspartate, malate, fumarate and succinate, and
function as antiporters with any two of these
substrates. Since DcuA is encoded in an operon with the
gene for aspartase, and DcuB is encoded in an operon
with the gene for fumarase, their physiological
functions may be to catalyze aspartate:fumarate and
fumarate:malate exchange during the anaerobic
utilization of aspartate and fumarate, respectively
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 430
Score = 30.1 bits (68), Expect = 7.2
Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 1 MAPVLPALGSLLTGSGWMTLGILPVVMAALTVLRYNNMDPESRPTNTKTDKVTAAMLGIL 60
+AP + ++L G+G + LPV+ V + + PE RP + V ++ + I
Sbjct: 87 LAPSVTYFLTILAGTGHVVYSTLPVIA---EVAKEQGIKPE-RPLSL---AVVSSQIAIT 139
Query: 61 PVVMAALTVLRYNNMDP 77
++A V ++P
Sbjct: 140 ASPVSAAVVFMSAILEP 156
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and related
FAD-dependent oxidoreductases [Coenzyme metabolism /
Energy production and conversion].
Length = 387
Score = 29.7 bits (67), Expect = 7.9
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 89 RAYDFIVIGAGSAGAVVANRLSENPDWKILLIEAGGDE 126
+ D ++GAG AG +A L+ + L+E E
Sbjct: 1 KMLDVAIVGAGPAGLALALALARAG-LDVTLLERAPRE 37
>gnl|CDD|240549 cd13144, MATE_like_4, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 434
Score = 29.5 bits (67), Expect = 9.9
Identities = 27/149 (18%), Positives = 51/149 (34%), Gaps = 47/149 (31%)
Query: 768 IRIAFNVSASAAFKKYIRLQSK--NPLH------YPLIEPNYFQHRRDIETLIEGIRIAF 819
I F +A A F Y +LQS P+ P++ NY + + + E I+ A
Sbjct: 259 ILAGFGPTAVAVFGIYFKLQSFVFMPVFGLNNGLIPIVAYNY--GAGNKDRIREAIKYAI 316
Query: 820 NVSASAAFQKYNSRPLLTPMPGCAMFELFSDEYWECSLRHFTFTIYHPTSTCKMGPPTDP 879
++ ++ + G +F+LF +++ +
Sbjct: 317 LIA------------VVIMLAGGLLFQLFP---------DQLLGLFNAS----------- 344
Query: 880 EAVVDPRLRVYGVDGLRVIDASIMPIIVS 908
+ GV LR+I S + +S
Sbjct: 345 -----EEMLAIGVPALRIISLSFLFAALS 368
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.138 0.414
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 55,137,367
Number of extensions: 5648574
Number of successful extensions: 5029
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4965
Number of HSP's successfully gapped: 119
Length of query: 1049
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 942
Effective length of database: 6,191,724
Effective search space: 5832604008
Effective search space used: 5832604008
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: 64 (28.4 bits)