RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 041113
(983 letters)
>gnl|CDD|215530 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/
magnesium ion binding / thiamin pyrophosphate binding.
Length = 1655
Score = 1682 bits (4357), Expect = 0.0
Identities = 700/983 (71%), Positives = 817/983 (83%), Gaps = 6/983 (0%)
Query: 1 MILTTLDSAVHWATSSPYGPVHINCPFREPLDNSPKHWMSSCLKGLDIWTSSIEPFTKYI 60
M+LTTLDSAVHWATSSP GPVHINCPFREPLD SP +WMSSCLKGLD+W S+ EPFTKYI
Sbjct: 440 MVLTTLDSAVHWATSSPCGPVHINCPFREPLDGSPTNWMSSCLKGLDMWMSNAEPFTKYI 499
Query: 61 QVQHSHACKSYTYCQMAEVLELVQGVNKGLLLVGAVHNEDEIWAVLHLARHIRWPVVADI 120
Q+Q S A T Q+ EVLE++Q +GLLL+GA+H ED+IWA L LA+H+ WPVVADI
Sbjct: 500 QMQSSKADGDTT-GQITEVLEVIQEAKRGLLLIGAIHTEDDIWAALLLAKHLMWPVVADI 558
Query: 121 LSGLRLRKLLASFLETEQNILFLDHLDHALLSESVKDWIQFDVIIQIGSRITSKRISQMI 180
LSGLRLRKL SF E E NILF+DHLDHALLS+SV++WIQFDV+IQIGSRITSKR+SQM+
Sbjct: 559 LSGLRLRKLFKSFPEFELNILFVDHLDHALLSDSVRNWIQFDVVIQIGSRITSKRVSQML 618
Query: 181 EECFPCTYILVDNHPCRHDPSHSVTHRIQSTIVQFVDFLLKVQVPHRSSKWCSFLRALDM 240
E+CFP +YILVD HPCRHDPSH VTHR+QS IVQF D LLK Q P R SKW L+ALD
Sbjct: 619 EKCFPFSYILVDKHPCRHDPSHLVTHRVQSNIVQFADCLLKAQFPRRRSKWHGHLQALDG 678
Query: 241 MVASEISFQICADYSLTEPHVAHELSRALTSNSALFVGNSMAIRDLDMYGRNWTTCTHTV 300
MVA EISFQI A+ SLTEP+VAH +S ALTS+SALF+GNSMAIRD DMYG + + +
Sbjct: 679 MVAQEISFQIHAESSLTEPYVAHVISEALTSDSALFIGNSMAIRDADMYGCSSENYSSRI 738
Query: 301 ADIMLNSEFPHQWIRVAGNRGASGIDGLLSTAIGFAVGCNKHVLCVVGDISFLHDTNGLA 360
D+ML++E P QWI+VAGNRGASGIDGLLSTAIGFAVGCNK VLCVVGDISFLHDTNGL+
Sbjct: 739 VDMMLSAELPCQWIQVAGNRGASGIDGLLSTAIGFAVGCNKRVLCVVGDISFLHDTNGLS 798
Query: 361 ILKQRMKRKPILMLVINNHGGAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGLN 420
IL QR+ RKP+ +LVINNHGGAIFSLLPIA RTEPR+L+QYFYT+H+ISI+NLCLAHG+
Sbjct: 799 ILSQRIARKPMTILVINNHGGAIFSLLPIAKRTEPRVLNQYFYTSHDISIENLCLAHGVR 858
Query: 421 HVQVKTKVELEEALSMSQHLGTDRVIEVESCIDANATFHSMLRKFARQSADHTLNVLSQF 480
H+ V TK ELE+AL SQ D V+EVES IDANA FHS LRKFA Q+A+H L +LS+
Sbjct: 859 HLHVGTKSELEDALFTSQVEQMDCVVEVESSIDANAAFHSTLRKFACQAAEHALGILSES 918
Query: 481 SVPDTISCSLSICKICRMEYSLYRIQLCAPPTSSYIDHNRSRFCREGFILSLYLEDGSVG 540
S +I + +CKI MEYSLYRIQLCAPPTS+ +D + +F REGFILSL LEDGSVG
Sbjct: 919 SCLHSIIDGVFLCKISGMEYSLYRIQLCAPPTSASVDFS--QFHREGFILSLSLEDGSVG 976
Query: 541 YGEVAPLEIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGSFSSWIWSTLGIPACEIF 600
+GEVAPLEIH+E+LLD EEQLRFLLH + GAKIS+ LPLLKGSFSSWIWS LGIP IF
Sbjct: 977 FGEVAPLEIHEEDLLDVEEQLRFLLHVIKGAKISFMLPLLKGSFSSWIWSELGIPPSSIF 1036
Query: 601 PSVRCGLEMAILNAIAVKHGSSFLNILYPLTEIDEEISKRSTSIKICALIDSNKSPVEVA 660
PSVRCGLEMAILNAIAV+HGSS LNIL P + DE S++S S++ICAL+DSN SP+EVA
Sbjct: 1037 PSVRCGLEMAILNAIAVRHGSSLLNILDPY-QKDENGSEQSHSVQICALLDSNGSPLEVA 1095
Query: 661 SIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEF 720
+A LVEEGF+AIKLKV RR PI+DA VIQEVRK VG++IELR DANRNWTY+EA+EF
Sbjct: 1096 YVARKLVEEGFSAIKLKVGRRVSPIQDAAVIQEVRKAVGYQIELRADANRNWTYEEAIEF 1155
Query: 721 GFLIKDCDLQYIEEPVQNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEKYAHPGIVA 780
G L+K C+L+YIEEPVQ+E+D+IK+CEE+GLPVALDETIDKF++ PL ML KY HPGIVA
Sbjct: 1156 GSLVKSCNLKYIEEPVQDEDDLIKFCEETGLPVALDETIDKFEECPLRMLTKYTHPGIVA 1215
Query: 781 IVIKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSAYIIFSSYLELQNAYLCKV 840
+VIKPSV+GGFENA LIARWAQ+HGKMAV+SAA+ESGLGLSAYI F+SYLE+QNA +
Sbjct: 1216 VVIKPSVVGGFENAALIARWAQQHGKMAVISAAYESGLGLSAYIQFASYLEMQNAKASRE 1275
Query: 841 MNRELCPPVAQGLGTYQWLKEDVTTDPISICHNSCRGFVEASVAKATHILQNLQINNDVI 900
MN+ CP VA GLGTY+WLKEDVT +P+ I + GF+EASVA A+ LQ QINNDVI
Sbjct: 1276 MNKGTCPSVAHGLGTYRWLKEDVTMNPLGIFRSPYSGFIEASVADASRNLQKFQINNDVI 1335
Query: 901 CKTSMEEQVLRYQLNVNSKDFCSFIKVQEIGQRIDIQDNILLFLHGFLGTGEEWIPIMKA 960
+T EEQV Y+L V+ F IKV E+GQ + +++LFLHGFLGTGE+WIPIMKA
Sbjct: 1336 VRTFKEEQVRTYELRVDVDGFSCLIKVHEVGQNAE--GSVVLFLHGFLGTGEDWIPIMKA 1393
Query: 961 VSGSARCISIDLPGHGGSKMQNH 983
+SGSARCISIDLPGHGGSK+QNH
Sbjct: 1394 ISGSARCISIDLPGHGGSKIQNH 1416
>gnl|CDD|236020 PRK07449, PRK07449,
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylate synthase; Validated.
Length = 568
Score = 323 bits (830), Expect = 2e-99
Identities = 142/474 (29%), Positives = 216/474 (45%), Gaps = 61/474 (12%)
Query: 3 LTTLDSAVHWATSSPYGPVHINCPFREPL-----DNSPKHWMSSCLKGLDIWTSSIEPFT 57
+TT+D+A+ A + GPVHINCPFREPL D++ W L L W
Sbjct: 150 VTTIDAALA-AQTLQAGPVHINCPFREPLYPDDDDDTGSPW----LAPLGDWWQDDWLRQ 204
Query: 58 KYIQVQHSHACKSYTYCQMAEVLELVQGVNKGLLLVGAVHNEDEIWAVLHLARHIRWPVV 117
++ + +G+++ G + E E A+ LA+ + WP++
Sbjct: 205 TVQPE-----------VTSQRDWDIWRQ-KRGVVIAGRLSAE-EGQAIAALAQLLGWPLL 251
Query: 118 ADILSGLRLRKLLASFLETEQNILFLDHLDHALLSESVKD-WIQFDVIIQIGSRITSKRI 176
AD LS + + D L + + +Q D++IQ GS TSKR+
Sbjct: 252 ADPLSPRN---------YAPLHPQPIPCYDLWLRNPKAAEELLQPDIVIQFGSPPTSKRL 302
Query: 177 SQMIEECFPCTYILVDNHPCRHDPSHSVTHRIQSTIVQFVDFLLKVQVPHRSSKWCSFLR 236
Q + +C Y +VD P R DP+H T R+ +++ + L+ + W +
Sbjct: 303 LQWLADC-EPEYWVVDPGPGRLDPAHHATRRLTASVATW----LEAHPAEKRKPWLQEWQ 357
Query: 237 ALDMMVASEISFQICADYSLTEPHVAHELSRALTSNSALFVGNSMAIRDLDMYGRNWTTC 296
AL+ + + A+ + TE VA L+ L LFVGNS+ +RD+D +G
Sbjct: 358 ALNEKAREAVR-EQLAEDTFTEAKVAAALADLLPEGGQLFVGNSLPVRDVDAFG------ 410
Query: 297 THTVADIMLNSEFPHQWIRVAGNRGASGIDGLLSTAIGFAVGCNKHVLCVVGDISFLHDT 356
V NRGASGIDGLLSTA G A K + ++GD+SFLHD
Sbjct: 411 ------------QLPDGYPVYSNRGASGIDGLLSTAAGVARASAKPTVALIGDLSFLHDL 458
Query: 357 NGLAILKQRMKRKPILMLVINNHGGAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCLA 416
NGL +LKQ P+ ++V+NN+GG IFSLLP + +++F T H + +
Sbjct: 459 NGLLLLKQV--PAPLTIVVVNNNGGGIFSLLPQPEEEPVF--ERFFGTPHGVDFAHAAAM 514
Query: 417 HGLNHVQVKTKVELEEALSMSQHLGTDRVIEVESCIDANATFHSMLRKFARQSA 470
+GL + + +T ELEEAL+ + VIEV++ A L
Sbjct: 515 YGLEYHRPETWAELEEALADALPTPGLTVIEVKTNRSQGAQLLQALLAQVSHLI 568
>gnl|CDD|224087 COG1165, MenD,
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
synthase [Coenzyme metabolism].
Length = 566
Score = 281 bits (720), Expect = 9e-84
Identities = 141/463 (30%), Positives = 213/463 (46%), Gaps = 57/463 (12%)
Query: 3 LTTLDS-AVHWATSSPYGPVHINCPFREPLDNSPKHWMSSCLKGLDIWTSSIEPFTKYIQ 61
L T+ S A A + GPVHIN PFREPL L+ T P +
Sbjct: 149 LRTIASAAAQQARTPHAGPVHINVPFREPL--------VPDLEPEGAGTPWGRPLGHWWF 200
Query: 62 VQHSHACKSYTYCQMAEVLELVQGVN--KGLLLVGAVHNEDEIWAVLHLARHIRWPVVAD 119
+T Q ++L +G+++ G + ++ +L LA + WP++AD
Sbjct: 201 -----YTGPWTVDQGPDLLSEWFFWRQKRGVIVAGRMSAQEGK-GILALANTLGWPILAD 254
Query: 120 ILSGLRLRKLLASFLETEQNILFLDHLDHALLSESVKDWIQFDVIIQIGSRITSKRISQM 179
LS LR ++ D L + + ++ D++IQ GS TSKR+ Q
Sbjct: 255 PLSPLRN---------------YIPCYDLWLANPKAAEKLRPDIVIQFGSPPTSKRLLQW 299
Query: 180 IEECFPCTYILVDNHPCRHDPSHSVTHRIQSTIVQFVDFLLKVQVPHRSSKWCSFLRALD 239
+ + P Y +VD DPSH T R+ + + + + + W AL+
Sbjct: 300 LADTEPIEYWVVDPGGGWLDPSHHATTRLSADVATWARSIHPAGRIRKP--WLDEWLALN 357
Query: 240 MMVASEISFQICADYSLTEPHVAHELSRALTSNSALFVGNSMAIRDLDMYGRNWTTCTHT 299
+ Q+ A +LTE H+A L+ L LFVGNSM +RD+D G+
Sbjct: 358 EKARQAVRDQL-AAEALTEAHLAAALADLLPPQDQLFVGNSMPVRDVDALGQ-------- 408
Query: 300 VADIMLNSEFPHQWIRVAGNRGASGIDGLLSTAIGFAVGCNKHVLCVVGDISFLHDTNGL 359
RV NRGASGIDG +STA+G A K + ++GD+SFLHD NGL
Sbjct: 409 ----------LPAGYRVYSNRGASGIDGTVSTALGIARATQKPTVALIGDLSFLHDLNGL 458
Query: 360 AILKQRMKRKPILMLVINNHGGAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGL 419
+LK+ +P+ ++V+NN+GG IFSLLP A + ++ F T H + +L +GL
Sbjct: 459 LLLKKV--PQPLTIVVVNNNGGGIFSLLPQAQ--SEPVFERLFGTPHGLDFAHLAATYGL 514
Query: 420 NHVQVKTKVELEEALSMSQHLGTDRVIEVESCIDANATFHSML 462
+ + ++ EL EAL + VIEV++ A H L
Sbjct: 515 EYHRPQSWDELGEALDQAWRRSGTTVIEVKTDRSDGAQLHQAL 557
>gnl|CDD|232855 TIGR00173, menD,
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylic-acid synthase. MenD was thought until
recently to act as SHCHC synthase, but has recently been
shown to act instead as SEPHCHC synthase. Conversion of
SEPHCHC into SHCHC and pyruvate may occur spontaneously
but is catalyzed efficiently, at least in some
organisms, by MenH (see TIGR03695). 2-oxoglutarate
decarboxylase/SHCHC synthase (menD) is a thiamine
pyrophosphate enzyme involved in menaquinone
biosynthesis [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 430
Score = 237 bits (606), Expect = 3e-69
Identities = 103/336 (30%), Positives = 157/336 (46%), Gaps = 43/336 (12%)
Query: 1 MILTTLDSAVHWATSSPYGPVHINCPFREPLDNSPKHWMSSCLKGLDIWTSSIEPFTKYI 60
+ +T+D AV A +P GPVHIN PFREPL P L+ L W
Sbjct: 138 YLRSTVDRAVAQAQGAPPGPVHINVPFREPLYPDP------LLQPLQPW--LRSGVPTVS 189
Query: 61 QVQHSHACKSYTYCQMAEVLELVQGVNKGLLLVGAVHNEDEIWAVLHLARHIRWPVVADI 120
+ ++ + ++ +GL++ G + ++ A+ LA + WP++AD
Sbjct: 190 T-GPPVLDPE----SLDDLWDRLRQAKRGLIIAGPLAGAEDAEALAALAEALGWPLLADP 244
Query: 121 LSGLRLRKLLASFLETEQNILFLDHLDHALLSESVKDWIQFDVIIQIGSRITSKRISQMI 180
LSGLR + L +DH D L + +++ +Q D++I+ G SKR+ Q +
Sbjct: 245 LSGLR----------GGPHPLVIDHYDLLLANAELREELQPDLVIRFGGPPVSKRLRQWL 294
Query: 181 EECFPCTYILVDNHPCRHDPSHSVTHRIQSTIVQFVDFLLKVQVPHRSSKWCSFLRALDM 240
P Y +VD DP H T R++++ F + L + + ++ W +
Sbjct: 295 AR-QPAEYWVVDPDGGWLDPFHHATTRLEASPAAFAE-ALAGLLKNPAAAWLDRWLEAEA 352
Query: 241 MVASEISFQICADYSLTEPHVAHELSRALTSNSALFVGNSMAIRDLDMYGRNWTTCTHTV 300
A E ++ A+ L+E +A LS+ L SALFVGNSM IRD+D +
Sbjct: 353 -KAREALREVLAEEPLSELSLARALSQLLPEGSALFVGNSMPIRDVDTFASP-------- 403
Query: 301 ADIMLNSEFPHQWIRVAGNRGASGIDGLLSTAIGFA 336
P + IRV NRGASGIDG LSTA+G A
Sbjct: 404 ---------PDKPIRVFANRGASGIDGTLSTALGIA 430
>gnl|CDD|238967 cd02009, TPP_SHCHC_synthase, Thiamine pyrophosphate (TPP) family,
SHCHC synthase subfamily, TPP-binding module; composed
of proteins similar to Escherichia coli
2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic
acid (SHCHC) synthase (also called MenD). SHCHC synthase
plays a key role in the menaquinone biosynthetic
pathway, converting isochorismate and 2-oxoglutarate to
SHCHC, pyruvate and carbon dioxide. The enzyme requires
TPP and a divalent metal cation for activity.
Length = 175
Score = 203 bits (518), Expect = 2e-60
Identities = 79/195 (40%), Positives = 110/195 (56%), Gaps = 21/195 (10%)
Query: 256 LTEPHVAHELSRALTSNSALFVGNSMAIRDLDMYGRNWTTCTHTVADIMLNSEFPHQWIR 315
LTEP +A L L S LFVGNSM IRDLD++ + +R
Sbjct: 1 LTEPALARALPDHLPEGSQLFVGNSMPIRDLDLFA-----------------LPSDKTVR 43
Query: 316 VAGNRGASGIDGLLSTAIGFAVGCNKHVLCVVGDISFLHDTNGLAILKQRMKRKPILMLV 375
V NRGASGIDG LSTA+G A+ +K + + GD+SFLHD NGL + KQ + + ++V
Sbjct: 44 VFANRGASGIDGTLSTALGIALATDKPTVLLTGDLSFLHDLNGLLLGKQ--EPLNLTIVV 101
Query: 376 INNHGGAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGLNHVQVKTKVELEEALS 435
INN+GG IFSLLP A + ++ F T + ++L A+GL + +V + ELE+AL
Sbjct: 102 INNNGGGIFSLLPQASFEDE--FERLFGTPQGLDFEHLAKAYGLEYRRVSSLDELEQALE 159
Query: 436 MSQHLGTDRVIEVES 450
+ VIEV++
Sbjct: 160 SALAQDGPHVIEVKT 174
>gnl|CDD|239436 cd03320, OSBS, o-Succinylbenzoate synthase (OSBS) catalyzes the
conversion of
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
(SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate
(o-succinylbenzoate or OSB), a reaction in the
menaquinone biosynthetic pathway. Menaquinone is an
essential cofactor for anaerobic growth in eubacteria
and some archaea. OSBS belongs to the enolase
superfamily of enzymes, characterized by the presence of
an enolate anion intermediate which is generated by
abstraction of the alpha-proton of the carboxylate
substrate by an active site residue and is stabilized by
coordination to the essential Mg2+ ion.
Length = 263
Score = 142 bits (360), Expect = 7e-38
Identities = 80/331 (24%), Positives = 129/331 (38%), Gaps = 91/331 (27%)
Query: 525 REGFILSLYLEDGSVGYGEVAPLEIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGSF 584
R G +L L G VG+GE+APL L F
Sbjct: 24 RRGLLLRLEDLTGPVGWGEIAPLP------------LAF--------------------- 50
Query: 585 SSWIWSTLGIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEIDEEISKRSTSI 644
G+E A+ N A+ G ++ I
Sbjct: 51 ---------------------GIESALANLEALLVGF----------------TRPRNRI 73
Query: 645 KICALIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIEL 704
+ AL+ + + + A G+ +KLKV +D ++ +R+ + +L
Sbjct: 74 PVNALLPAGDAAALGEAKAA--YGGGYRTVKLKVGAT-SFEEDLARLRALREALPADAKL 130
Query: 705 RVDANRNWTYQEALEFGFLIKDCDLQYIEEPVQNEEDIIKYCEESGLPVALDETIDKFQK 764
R+DAN W+ +EAL F + ++YIE+P+ ++ +G+P+ALDE++ +
Sbjct: 131 RLDANGGWSLEEALAFLEALAAGRIEYIEQPLPPDDLAELRRLAAGVPIALDESL--RRL 188
Query: 765 DPLNMLEKYAHPGIVAIVIKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSAYI 824
D L G A+V+KP+++GG +A A+ G AVVS+A ES +GL A
Sbjct: 189 DDPLALAAAGALG--ALVLKPALLGGPRALLELAEEARARGIPAVVSSALESSIGLGALA 246
Query: 825 IFSSYLELQNAYLCKVMNRELCPPVAQGLGT 855
++ L P A GLGT
Sbjct: 247 HLAAALPP--------------LPAACGLGT 263
>gnl|CDD|233641 TIGR01927, menC_gamma/gm+, o-succinylbenzoate synthase. This model
describes the enzyme o-succinylbenzoic acid synthetase
(menC) that is involved in one of the steps of the
menaquinone biosynthesis pathway. It takes SHCHC and
makes it into 2-succinylbenzoate. Included in this model
are gamma proteobacteria and archaea. Many of the
com-names of the proteins identified by the model are
identified as O-succinylbenzoyl-CoA synthase in error
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 307
Score = 121 bits (304), Expect = 5e-30
Identities = 92/374 (24%), Positives = 151/374 (40%), Gaps = 74/374 (19%)
Query: 503 YRIQLCAPPTSSYIDHNRSRFCREGFILSLYLEDGSVGYGEVAPLE-IHKENLLDAEEQL 561
YR Q+ P + + + REG I+ L ++G G+GE+APL E L +A +
Sbjct: 1 YRYQM--PFDAPVVTRHGLLARREGLIVRL-TDEGRTGWGEIAPLPGFGTETLAEALDFC 57
Query: 562 RFLLHFMTGAKISYFLPLLKGSFSSWIWSTLGIPACEIFPSVRCGLEMAILNAIAVKHGS 621
R L+ +T I L PSV G E A
Sbjct: 58 RALIEEITRGDIEAIDDQL--------------------PSVAFGFESA----------- 86
Query: 622 SFLNILYPLTEIDEEISKRSTSIKICALIDSNKSPVEVASIATTLVEEGFTAIKLKVARR 681
L L +E+ S AL+ P + + + EGF K KV
Sbjct: 87 -----LIELES-GDELPPASNYY--VALL-PAGDPALL--LLRSAKAEGFRTFKWKV-GV 134
Query: 682 ADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKDCD------LQYIEEP 735
+ ++ ++ + + + + ELR+DAN + EA +F K D + ++EEP
Sbjct: 135 GELAREGMLVNLLLEALPDKAELRLDANGGLSPDEAQQFL---KALDPNLRGRIAFLEEP 191
Query: 736 VQNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEKYAHPGIVAIVIKPSVIGGFENAG 795
+ + +++ + E +G +ALDE++ + P + ++Y A+VIKP++IG
Sbjct: 192 LPDADEMSAFSEATGTAIALDESL---WELP-QLADEYGPGWRGALVIKPAIIGSPAKLR 247
Query: 796 LIARWAQRHGKMAVVSAAFESGLGLSAYIIFSSYLELQNAYLCKVMNRELCPPVAQGLGT 855
+A+ A R G AV S+ FES + L A L ++ P A G T
Sbjct: 248 DLAQKAHRLGLQAVFSSVFESSIALGQL-----------ARLAAKLSP---DPAAVGFTT 293
Query: 856 YQWLKEDVTTDPIS 869
+D+ P S
Sbjct: 294 ALLRAQDLEAWPFS 307
>gnl|CDD|227284 COG4948, COG4948, L-alanine-DL-glutamate epimerase and related
enzymes of enolase superfamily [Cell envelope
biogenesis, outer membrane / General function prediction
only].
Length = 372
Score = 113 bits (284), Expect = 7e-27
Identities = 74/301 (24%), Positives = 121/301 (40%), Gaps = 31/301 (10%)
Query: 529 ILSLYLEDGSVGYGEVAPLEIHKENLLDAEEQLRFLLHFMTGAKISYFLP-LLKGSFSSW 587
I+ + +DG VG+GE P + L LL I L + F
Sbjct: 33 IVEITTDDGIVGWGEAVPGGRARYGEEAEAVLLAPLLIGRDPFDIERIWQKLYRAGF--- 89
Query: 588 IWSTLGIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEIDEEIS-KRSTSIKI 646
GI + +++A+ + G +Y L + K ++
Sbjct: 90 -ARRGGI-----TMAAISAVDIALWDLAGKALGVP----VYKL------LGGKVRDEVRA 133
Query: 647 CA-LIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELR 705
A A A LVE GF A+KLKV D +D E ++ +R+ VG + L
Sbjct: 134 YASGGGGEDPEEMAAEAARALVELGFKALKLKVGV-GDGDEDLERVRALREAVGDDVRLM 192
Query: 706 VDANRNWTYQEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYCEESGLPVALDETIDKFQ 763
VDAN WT +EA+ +++ L++IEEP+ + E + + + P+A E++
Sbjct: 193 VDANGGWTLEEAIRLARALEEYGLEWIEEPLPPDDLEGLRELRAATSTPIAAGESVYTR- 251
Query: 764 KDPLNMLEKYAHPGIVAIVIKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSAY 823
D +LE A + + + +GG A IA A+ G M V E + L+A
Sbjct: 252 WDFRRLLEAGA---VDIVQPDLARVGGITEALKIAALAEGFGVM--VGPHVEGPISLAAA 306
Query: 824 I 824
+
Sbjct: 307 L 307
>gnl|CDD|239431 cd03315, MLE_like, Muconate lactonizing enzyme (MLE) like subgroup
of the enolase superfamily. Enzymes of this subgroup
share three conserved carboxylate ligands for the
essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and residues that can
function as general acid/base catalysts, a Lys-X-Lys
motif and another conserved lysine. Despite these
conserved residues, the members of the MLE subgroup,
like muconate lactonizing enzyme, o-succinylbenzoate
synthase (OSBS) and N-acylamino acid racemase (NAAAR),
catalyze different reactions.
Length = 265
Score = 107 bits (270), Expect = 7e-26
Identities = 58/180 (32%), Positives = 85/180 (47%), Gaps = 8/180 (4%)
Query: 655 SPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTY 714
P EVA A +E GF KLKV R DP +D V+ +R+ VG ELRVDANR WT
Sbjct: 85 EPAEVAEEARRALEAGFRTFKLKVGR--DPARDVAVVAALREAVGDDAELRVDANRGWTP 142
Query: 715 QEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEK 772
++A+ ++D L Y+E+P+ + E + P+ DE+ P + +
Sbjct: 143 KQAIRALRALEDLGLDYVEQPLPADDLEGRAALARATDTPIMADESA----FTPHDAFRE 198
Query: 773 YAHPGIVAIVIKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSAYIIFSSYLEL 832
A A+ IK + GG A + A+ G +V + ESGLG A ++ L
Sbjct: 199 LALGAADAVNIKTAKTGGLTKAQRVLAVAEALGLPVMVGSMIESGLGTLANAHLAAALRA 258
>gnl|CDD|235345 PRK05105, PRK05105, O-succinylbenzoate synthase; Provisional.
Length = 322
Score = 101 bits (253), Expect = 5e-23
Identities = 81/338 (23%), Positives = 142/338 (42%), Gaps = 79/338 (23%)
Query: 499 EYSLYRIQLCAPPTSSYIDHNRSRFCREGFILSLYLEDGSVGYGEVAPL-EIHKENLLDA 557
LYR Q+ P + + R+G ++ L E G+GE+APL +E L +A
Sbjct: 3 SAQLYRYQI--PMDAGVPLRKQRLKTRDGLVVQL-REGEREGWGEIAPLPGFSQETLEEA 59
Query: 558 EEQLRFLLHFMTGAKISYFLPLLKGSFSSWIWSTLGIPACEIFPSVRCGLEMAILNAIAV 617
+E L L ++W+ + +PSV GL A
Sbjct: 60 QEALLAWL-------------------NNWLAGDCDDELSQ-YPSVAFGLSCA------- 92
Query: 618 KHGSSFLNILYPLTEIDEEISKRSTSIKICALI--DSNKSPVEVASIATTLVEEGFTAIK 675
L E+ + + + L D ++ +++A + V K
Sbjct: 93 ------------LAELAGTLPQAANYRTA-PLCYGDPDELILKLADMPGEKV------AK 133
Query: 676 LKVARRADPIKDAEVIQEVRKKVGHRI-------ELRVDANRNWTYQEALEFGFLIKDCD 728
+KV + ++D ++ + + +LR+DANR WT ++A +F +
Sbjct: 134 VKVGL-YEAVRDGMLV--------NLLLEAIPDLKLRLDANRGWTLEKAQQFAKYVPPDY 184
Query: 729 ---LQYIEEPVQNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEKYAHPGIVAIVIKP 785
+ ++EEP + +D + +G+ +A DE++ ++P E A PG+ AIVIKP
Sbjct: 185 RHRIAFLEEPCKTPDDSRAFARATGIAIAWDESL----REPDFQFE--AEPGVRAIVIKP 238
Query: 786 SVIGGFEN-AGLIARWAQRHGKMAVVSAAFESGLGLSA 822
++ G E LI + A G AV+S++ ES LGL+
Sbjct: 239 TLTGSLEKCQELIEQ-AHALGLRAVISSSIESSLGLTQ 275
>gnl|CDD|239435 cd03319, L-Ala-DL-Glu_epimerase, L-Ala-D/L-Glu epimerase catalyzes
the epimerization of L-Ala-D/L-Glu and other dipeptides.
The genomic context and the substrate specificity of
characterized members of this family from E.coli and
B.subtilis indicates a possible role in the metabolism
of the murein peptide of peptidoglycan, of which
L-Ala-D-Glu is a component. L-Ala-D/L-Glu epimerase is a
member of the enolase-superfamily, which is
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 316
Score = 100 bits (252), Expect = 5e-23
Identities = 78/334 (23%), Positives = 128/334 (38%), Gaps = 46/334 (13%)
Query: 497 RMEYSLYRIQLCAPPTSSYIDHNRSRFCREGFILSLYLEDGSVGYGEVAPLE-IHKENLL 555
++ R+ L P T + SR E I+ + L DG GYGE AP + E +
Sbjct: 1 KISLRPERLPLKRPFTIAR----GSRTEAENVIVEIEL-DGITGYGEAAPTPRVTGETVE 55
Query: 556 DAEEQLRFLLHFMTGAKISYFLPLLKGSFSSW--IWSTLGIPACEIFPSVRCGLEMAILN 613
+ P L G + L + R +++A+ +
Sbjct: 56 SVLAA------------LKSVRPALIGGDPRLEKLLEALQE-LLPGNGAARAAVDIALWD 102
Query: 614 AIAVKHGSSF--LNILYPLTEIDEEISKRSTSIKICALIDSNKSPVEVASIATTLVEEGF 671
A G L + T I S +P +A+ A + GF
Sbjct: 103 LEAKLLGLPLYQLWGGGAPRPL-------ETDYTI-----SIDTPEAMAAAAKKAAKRGF 150
Query: 672 TAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKDCDLQY 731
+K+K+ D D E I+ +R+ LRVDAN+ WT +EA+E + + ++
Sbjct: 151 PLLKIKLGG--DLEDDIERIRAIREAAPD-ARLRVDANQGWTPEEAVELLRELAELGVEL 207
Query: 732 IEEPV--QNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEKYAHPGIVAIV-IKPSVI 788
IE+PV +++ + ++S LP+ DE+ + + A G + IK
Sbjct: 208 IEQPVPAGDDDGLAYLRDKSPLPIMADESC----FSAAD-AARLAGGGAYDGINIKLMKT 262
Query: 789 GGFENAGLIARWAQRHGKMAVVSAAFESGLGLSA 822
GG A IA A+ G +V ES L ++A
Sbjct: 263 GGLTEALRIADLARAAGLKVMVGCMVESSLSIAA 296
>gnl|CDD|224358 COG1441, MenC, O-succinylbenzoate synthase [Coenzyme metabolism].
Length = 321
Score = 96.0 bits (239), Expect = 2e-21
Identities = 80/326 (24%), Positives = 133/326 (40%), Gaps = 60/326 (18%)
Query: 500 YSLYRIQLCAPPTSSYIDHNRSRFCREGFILSLYLEDGSVGYGEVAPL-EIHKENLLDAE 558
LYR Q+ P + I +R R+G + L E G+GE+APL +E L A+
Sbjct: 4 AQLYRYQI--PMDAGVILRDRRLKTRDGLYVCLR-EGEREGWGEIAPLPGFSQETLEQAQ 60
Query: 559 EQLRFLLHFMTGAKISYFLPLLKGSFSSWIWSTLGIPACEIFPSVRCGLEMAILNAIAVK 618
EQ L+ W P PSV GL A
Sbjct: 61 EQALAWLN---------------------NWLAGHDPLDPQMPSVAFGLSCA-------- 91
Query: 619 HGSSFLNILYPLTEIDEEISKRSTSIKICALIDSNKSPVEVASIATTLVEEGFTAIKLKV 678
L L E + + +C P E+ + G K+KV
Sbjct: 92 --------LAELKGTLPEAANYRVA-PLC-----TGDPDELYLKLADM--PGEKVAKVKV 135
Query: 679 ARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIK---DCDLQYIEEP 735
+ ++D ++ + + + + LR+DANR WT +A +F + + ++EEP
Sbjct: 136 GLY-EAVRDGMIVNLLLEAIPD-LHLRLDANRAWTPLKAQQFAKYVNPDYRSRIAFLEEP 193
Query: 736 VQNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEKYAHPGIVAIVIKPSVIGGFENAG 795
+ + + E+G+ +A DE++ ++ E A PG+ A+VIKP++ G +
Sbjct: 194 CKTRAESRAFARETGIAIAWDESL----READFAFE--AEPGVRAVVIKPTLTGSLQRVR 247
Query: 796 LIARWAQRHGKMAVVSAAFESGLGLS 821
+ + A G AV+S++ ES LGL+
Sbjct: 248 ELVQQAHALGLTAVISSSIESSLGLT 273
>gnl|CDD|239432 cd03316, MR_like, Mandelate racemase (MR)-like subfamily of the
enolase superfamily. Enzymes of this subgroup share
three conserved carboxylate ligands for the essential
divalent metal ion (usually Mg2+), two aspartates and a
glutamate, and conserved catalytic residues, a
Lys-X-Lys motif and a conserved histidine-aspartate
dyad. Members of the MR subgroup are mandelate racemase,
D-glucarate/L-idarate dehydratase (GlucD),
D-altronate/D-mannonate dehydratase , D-galactonate
dehydratase (GalD) , D-gluconate dehydratase (GlcD), and
L-rhamnonate dehydratase (RhamD).
Length = 357
Score = 86.1 bits (214), Expect = 7e-18
Identities = 59/179 (32%), Positives = 88/179 (49%), Gaps = 21/179 (11%)
Query: 655 SPVEVASIATTLVEEGFTAIKLKVARRADPIK----DAEVIQEVRKKVGHRIELRVDANR 710
SP E+A A V EGFTA+KLKV + D ++ VR+ VG ++L VDAN
Sbjct: 139 SPEELAEEAKRAVAEGFTAVKLKVGGPDSGGEDLREDLARVRAVREAVGPDVDLMVDANG 198
Query: 711 NWTYQEALEFGFLIKDCDLQYIEEPVQNE--EDIIKYCEESGLPVALDE---TIDKFQKD 765
W EA+ +++ DL + EEPV + E + + + + +P+A E T +F+
Sbjct: 199 RWDLAEAIRLARALEEYDLFWFEEPVPPDDLEGLARLRQATSVPIAAGENLYTRWEFRD- 257
Query: 766 PLNMLEKYAHPGIVAIVIKPSV--IGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSA 822
+LE G V I+ P V +GG A IA A+ HG + V +GL+A
Sbjct: 258 ---LLEA----GAVDIIQ-PDVTKVGGITEAKKIAALAEAHG-VRVAPHGAGGPIGLAA 307
>gnl|CDD|214914 smart00922, MR_MLE, Mandelate racemase / muconate lactonizing
enzyme, C-terminal domain. Mandelate racemase (MR) and
muconate lactonizing enzyme (MLE) are two bacterial
enzymes involved in aromatic acid catabolism. They
catalyze mechanistically distinct reactions yet they are
related at the level of their primary, quaternary
(homooctamer) and tertiary structures.. This entry
represents the C-terminal region of these proteins.
Length = 97
Score = 78.9 bits (195), Expect = 1e-17
Identities = 28/83 (33%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 659 VASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEAL 718
+ + E GF A+K+KV P++D + VR+ VG +L VDAN WT +EA+
Sbjct: 5 AEAARRAVAEAGFRAVKVKVG--GGPLEDLARVAAVREAVGPDADLMVDANGAWTAEEAI 62
Query: 719 EFGFLIKDCDLQYIEEPVQNEED 741
+ + L++IEEPV ++
Sbjct: 63 RALEALDELGLEWIEEPVPPDDL 85
>gnl|CDD|239433 cd03317, NAAAR, N-acylamino acid racemase (NAAAR), an octameric
enzyme that catalyzes the racemization of N-acylamino
acids. NAAARs act on a broad range of N-acylamino acids
rather than amino acids. Enantiopure amino acids are of
industrial interest as chiral building blocks for
antibiotics, herbicides, and drugs. NAAAR is a member of
the enolase superfamily, characterized by the presence
of an enolate anion intermediate which is generated by
abstraction of the alpha-proton of the carboxylate
substrate by an active site residue and is stabilized by
coordination to the essential Mg2+ ion.
Length = 354
Score = 83.1 bits (206), Expect = 8e-17
Identities = 85/334 (25%), Positives = 122/334 (36%), Gaps = 85/334 (25%)
Query: 525 REGFILSLYLEDGSVGYGEVAPLEI---HKENLLDAEEQLRFLLHFMTGAKISYFLPLLK 581
RE I+ L E+G GYGEV E +E A L+ Y LPLL
Sbjct: 24 REFLIVELTDEEGITGYGEVVAFEGPFYTEETNATAWHILK-----------DYLLPLLL 72
Query: 582 G-------SFSSWIWSTLGIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEID 634
G S + G + GLEMA+ + A G S
Sbjct: 73 GREFSHPEEVSERLAPIKG------NNMAKAGLEMAVWDLYAKAQGQS------------ 114
Query: 635 EEISKRSTSIKICALIDSNKSPVEV-------ASIATTL------VEEGFTAIKLKVARR 681
+ + + + V + L +EEG+ IKLK+
Sbjct: 115 -----------LAQYLGGTRDSIPVGVSIGIQDDVEQLLKQIERYLEEGYKRIKLKIK-- 161
Query: 682 ADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKDCD---LQYIEEPVQN 738
P D E ++ VR++ I L DAN +T + L+K D L IE+P+
Sbjct: 162 --PGWDVEPLKAVRERFPD-IPLMADANSAYTLADIP----LLKRLDEYGLLMIEQPLA- 213
Query: 739 EEDIIKYCEESGL---PVALDETIDKFQKDPLNMLEKYAHPGIVAIV-IKPSVIGGFENA 794
+D+I + E L P+ LDE+I + K G I+ IKP +GG A
Sbjct: 214 ADDLIDHAELQKLLKTPICLDESIQSAED-----ARKAIELGACKIINIKPGRVGGLTEA 268
Query: 795 GLIARWAQRHGKMAVVSAAFESGLGLSAYIIFSS 828
I Q HG ESG+G + + +S
Sbjct: 269 LKIHDLCQEHGIPVWCGGMLESGIGRAHNVALAS 302
>gnl|CDD|235084 PRK02901, PRK02901, O-succinylbenzoate synthase; Provisional.
Length = 327
Score = 81.6 bits (202), Expect = 2e-16
Identities = 62/201 (30%), Positives = 96/201 (47%), Gaps = 26/201 (12%)
Query: 670 GFTAIKLKVA-RRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALE-FGFLIKDC 727
G K+KVA D + VR +G +RVDAN W+ EA+ L D
Sbjct: 102 GCRTAKVKVAEPGQTLADDVARVNAVRDALGPDGRVRVDANGGWSVDEAVAAARALDADG 161
Query: 728 DLQYIEEPVQNEEDIIKYCEESGLPVALDETIDKFQKDPLNMLEKYAHPGIVAIVIKPSV 787
L+Y+E+P E++ + G+P+A DE+I + +DPL + A VA V+K +
Sbjct: 162 PLEYVEQPCATVEELAELRRRVGVPIAADESIRR-AEDPLRVAR--AGAADVA-VLKVAP 217
Query: 788 IGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSAYIIFSSYL-ELQNAYLCKVMNRELC 846
+GG A A++ G VVS+A ++ +G++A + ++ L EL +A C
Sbjct: 218 LGGVRAA---LDIAEQIGLPVVVSSALDTSVGIAAGLALAAALPELDHA--C-------- 264
Query: 847 PPVAQGLGTYQWLKEDVTTDP 867
GL T +EDV DP
Sbjct: 265 -----GLATGGLFEEDV-ADP 279
>gnl|CDD|235061 PRK02714, PRK02714, O-succinylbenzoate synthase; Provisional.
Length = 320
Score = 80.4 bits (199), Expect = 3e-16
Identities = 79/350 (22%), Positives = 146/350 (41%), Gaps = 81/350 (23%)
Query: 525 REGFILSLYLEDGSVGYGEVAPL-EIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGS 583
REG IL L E G +G+GE+APL E L EE L F L G
Sbjct: 28 REGIILRLTDETGKIGWGEIAPLPWFGSETL---EEAL-------------AFCQQLPGE 71
Query: 584 FSSWIWSTLGIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEIDEEISKRSTS 643
+ IP + P+ + G E A+ N E +
Sbjct: 72 ITPEQ--IFSIP--DALPACQFGFESALEN------------------ESGSRSNVTLNP 109
Query: 644 IKICALIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIE 703
+ AL+ + ++ ++ TL ++G+ K K+ ++ ++ +++ +++ +
Sbjct: 110 LSYSALLPAGEAALQQWQ---TLWQQGYRTFKWKIGVD-PLEQELKIFEQLLERLPAGAK 165
Query: 704 LRVDANRNWTYQEALEFGFLIKDCD------LQYIEEP--VQNEEDIIKYCEESGLPVAL 755
LR+DAN + +EA ++ CD +++IE+P +++++ ++ P+AL
Sbjct: 166 LRLDANGGLSLEEAKR---WLQLCDRRLSGKIEFIEQPLPPDQFDEMLQLSQDYQTPIAL 222
Query: 756 DETIDKFQKDPLNMLEKYAH---PGIVAIVIKPSVIGGFENAGLIARWAQRHGKMAVVSA 812
DE++ L L++ GI VIKP++ G + + ++ Q+H AV S+
Sbjct: 223 DESVAN-----LAQLQQCYQQGWRGIF--VIKPAIAG---SPSRLRQFCQQHPLDAVFSS 272
Query: 813 AFESGLGLSAYIIFSSYLELQNAYLCKVMNRELCPPVAQGLGTYQWLKED 862
FE+ +G A + ++ EL P A G G W ++
Sbjct: 273 VFETAIGRKAALALAA--ELSR------------PDRALGFGVTHWFSDE 308
>gnl|CDD|238188 cd00308, enolase_like, Enolase-superfamily, characterized by the
presence of an enolate anion intermediate which is
generated by abstraction of the alpha-proton of the
carboxylate substrate by an active site residue and is
stabilized by coordination to the essential Mg2+ ion.
Enolase superfamily contains different enzymes, like
enolases, glutarate-, fucanate- and galactonate
dehydratases, o-succinylbenzoate synthase, N-acylamino
acid racemase, L-alanine-DL-glutamate epimerase,
mandelate racemase, muconate lactonizing enzyme and
3-methylaspartase.
Length = 229
Score = 74.3 bits (183), Expect = 9e-15
Identities = 39/136 (28%), Positives = 62/136 (45%), Gaps = 6/136 (4%)
Query: 689 EVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYC 746
E ++ VR+ G L VDAN WT +EA+ ++ L +IEEP + E
Sbjct: 82 ERVRAVREAFGPDARLAVDANGAWTPKEAIRLIRALEKYGLAWIEEPCAPDDLEGYAALR 141
Query: 747 EESGLPVALDETIDKFQKDPLNMLEKYAHPGIVAIVIKPSVIGGFENAGLIARWAQRHGK 806
+G+P+A DE++ LE + + IKP+ +GG + A A+ G
Sbjct: 142 RRTGIPIAADESVTTVDD----ALEALELGAVDILQIKPTRVGGLTESRRAADLAEAFGI 197
Query: 807 MAVVSAAFESGLGLSA 822
+V ES +G +A
Sbjct: 198 RVMVHGTLESSIGTAA 213
>gnl|CDD|213667 TIGR01928, menC_lowGC/arch, o-succinylbenzoate synthase. This
model describes the enzyme o-succinylbenzoic acid
synthetase (menC) that is involved in one of the steps
of the menaquinone biosynthesis pathway. It takes SHCHC
and makes it into 2-succinylbenzoate. Included in this
model are low GC gram positive bacteria and archaea.
Also included in the seed and in the model are enzymes
with the com-name of N-acylamino acid racemase (or the
more general term, racemase / racemase family), which
refers to the enzyme's industrial application as
racemases, and not to its biological function as
o-succinylbenzoic acid synthetase [Biosynthesis of
cofactors, prosthetic groups, and carriers, Menaquinone
and ubiquinone].
Length = 324
Score = 73.7 bits (181), Expect = 6e-14
Identities = 65/307 (21%), Positives = 117/307 (38%), Gaps = 33/307 (10%)
Query: 525 REGFILSLYLEDGSVGYGEVAPLEIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGSF 584
R+ I+ L + G+ G+GEV + E + + H + +F P + F
Sbjct: 21 RDCLIIELIDDKGNAGFGEVVAFQTPWYT----HETIATVKHIIE----DFFEPNINKEF 72
Query: 585 SSWIWSTLGIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEIDEEISKRSTSI 644
+ + + + P + GLEMA+ + S L + +
Sbjct: 73 EHPSEALELVRSLKGTPMAKAGLEMALWDMYHKLPSFS----LAYGQGKLRDKAPAGAVS 128
Query: 645 KICALIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIEL 704
+ K ++ S L G+ IKLK+ P ++++ R + +I L
Sbjct: 129 GLANDEQMLK---QIES----LKATGYKRIKLKIT----PQIMHQLVKLRRLRF-PQIPL 176
Query: 705 RVDANRNWTYQEALEFGFLIKDCDLQYIEEPVQNEEDIIKY---CEESGLPVALDETIDK 761
+DAN ++ Q+ L L YIEEP + + DI + + P+ LDE+I
Sbjct: 177 VIDANESYDLQDFPRLKEL-DRYQLLYIEEPFKID-DISMLDELAKGTITPICLDESITS 234
Query: 762 FQKDPLNMLEKYAHPGIVAIVIKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLS 821
D N++E + I IKP +GG + HG + E+G+ +
Sbjct: 235 LD-DARNLIELGN---VKVINIKPGRLGGLTEVQKAIDTCKEHGAKVWIGGMLETGISRA 290
Query: 822 AYIIFSS 828
+ +S
Sbjct: 291 FNVALAS 297
>gnl|CDD|201648 pfam01188, MR_MLE, Mandelate racemase / muconate lactonizing
enzyme, C-terminal domain. C-terminal domain is TIM
barrel fold, dehydratase-like domain. Manganese is
associated with this domain.
Length = 69
Score = 66.7 bits (164), Expect = 1e-13
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 690 VIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYCE 747
+ VR+ VG ++LRVDAN WT +EA+ ++ L +IEEP+ + E + +
Sbjct: 1 RVAAVREAVGPDVDLRVDANGAWTPEEAIRLARALEPYGLLWIEEPLPPDDLEGLAELRR 60
Query: 748 ESGLPVALD 756
+ +P+A
Sbjct: 61 ATPIPIAAG 69
>gnl|CDD|239434 cd03318, MLE, Muconate Lactonizing Enzyme (MLE), an homooctameric
enzyme, catalyses the conversion of cis,cis-muconate
(CCM) to muconolactone (ML) in the catechol branch of
the beta-ketoadipate pathway. This pathway is used in
soil microbes to breakdown lignin-derived aromatics,
catechol and protocatechuate, to citric acid cycle
intermediates. Some bacterial species are also capable
of dehalogenating chloroaromatic compounds by the action
of chloromuconate lactonizing enzymes (Cl-MLEs). MLEs
are members of the enolase superfamily characterized by
the presence of an enolate anion intermediate which is
generated by abstraction of the alpha-proton of the
carboxylate substrate by an active site residue and that
is stabilized by coordination to the essential Mg2+ ion.
Length = 365
Score = 69.3 bits (170), Expect = 2e-12
Identities = 65/301 (21%), Positives = 116/301 (38%), Gaps = 32/301 (10%)
Query: 529 ILSLYLEDGSVGYGEVAPLEIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGSFSSWI 588
++ L DG VG GE E + Y PLL G ++ I
Sbjct: 32 LVRLTTSDGVVGIGEATTPGGPAWGGESPETIKAIIDR--------YLAPLLIGRDATNI 83
Query: 589 WSTL----GIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEIDEEISKRSTSI 644
+ + A +F + +EMA+L+A + G +L + S+
Sbjct: 84 GAAMALLDRAVAGNLF--AKAAIEMALLDAQGRRLGLPVSELLG---------GRVRDSL 132
Query: 645 KICALIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIEL 704
+ + S + ++A L KLK+ R P D ++ + K +G R +
Sbjct: 133 PVAWTLASGDTERDIAEAEEMLEAGRHRRFKLKMGAR-PPADDLAHVEAIAKALGDRASV 191
Query: 705 RVDANRNWTYQEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYCEESGLPVALDETIDKF 762
RVD N+ W A+ ++ ++ IE+PV +N + + + + +P+ DE++
Sbjct: 192 RVDVNQAWDESTAIRALPRLEAAGVELIEQPVPRENLDGLARLRSRNRVPIMADESV--- 248
Query: 763 QKDPLNMLEKYAHPGIVAIV-IKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLS 821
P + E A G + +K + GG A +A A+ G ES +G +
Sbjct: 249 -SGPADAFE-LARRGAADVFSLKIAKSGGLRRAQKVAAIAEAAGIALYGGTMLESSIGTA 306
Query: 822 A 822
A
Sbjct: 307 A 307
>gnl|CDD|223107 COG0028, IlvB, Thiamine pyrophosphate-requiring enzymes
[acetolactate synthase, pyruvate dehydrogenase
(cytochrome), glyoxylate carboligase, phosphonopyruvate
decarboxylase] [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 550
Score = 66.1 bits (162), Expect = 5e-11
Identities = 91/475 (19%), Positives = 160/475 (33%), Gaps = 89/475 (18%)
Query: 5 TLDSAVHWATSSPYGPVHINCPFREPLDNSPKHWMSSCLKGLDIWTSSIEPFTKYIQVQH 64
+ A A S GPV ++ P D+ + E +
Sbjct: 138 VVARAFRIALSGRPGPVVVDLP-------------------KDVLAAEAEEPGPEPAILP 178
Query: 65 SHACKSYTYCQMAEVLELVQGVNKGLLLVGA-VHNEDEIWAVLHLARHIRWPVVADILSG 123
+ + + EL+ + ++L G V + LA + PVV L G
Sbjct: 179 PYRPAPPPPEAIRKAAELLAEAKRPVILAGGGVRRAGASEELRELAEKLGAPVVTT-LMG 237
Query: 124 LRL----RKLLASFLETEQNILFLDHLDHALLSESVKDWIQFDVIIQIGSRITSKRISQM 179
L L + + L E+ D+++ +G+R R++
Sbjct: 238 KGAVPEDHPLSLGMLG-----MHGTKAANEALEEA-------DLLLAVGAR-FDDRVTGY 284
Query: 180 IEECFPCTYILVDNHPCRHDPSHSVTHRIQSTIVQFVDFLLKVQVPHRSSKWCSFLRALD 239
P I +D P ++ V I ++ LL+ ++ + W L
Sbjct: 285 SGFAPPAAIIHIDIDPAEIGKNYPVDVPIVGDAKATLEALLE-ELKPERAAWLEELLEAR 343
Query: 240 MMVASEISFQICADYSLTEPHVAHELSRALTSNSALF---VGNSM--AIRDLDMYGRNWT 294
++ D + +V L R L + A+ VG A R D Y
Sbjct: 344 AAYRDLALEELADDGIKPQ-YVIKVL-RELLPDDAIVVTDVGQHQMWAARYFDFYR---- 397
Query: 295 TCTHTVADIMLNSEFPHQWIRVAGNRGASGIDGLLSTAIGFAVGC-NKHVLCVVGDISFL 353
P +++ +G G G GL AIG + ++ V+ + GD F+
Sbjct: 398 ---------------PRRFL-TSGGLGTMGF-GL-PAAIGAKLAAPDRKVVAIAGDGGFM 439
Query: 354 HDTNGLAILKQRMKRKPILMLVINNHG-GAIFSLLPIADRTEPRIL-DQYFYTTH--NIS 409
+ L + P+ ++V+NN G G + R + + T N
Sbjct: 440 MNGQELETAVR--YGLPVKIVVLNNGGYGMV--------RQWQELFYGGRYSGTDLGNPD 489
Query: 410 IQNLCLAHGLNHVQVKTKVELEEALSMSQHLGTDR--VIEVESCIDANATFHSML 462
L A+G ++V+T ELEEAL + L +D +I+V +D M+
Sbjct: 490 FVKLAEAYGAKGIRVETPEELEEAL--EEALASDGPVLIDVV--VDPEEAVPPMV 540
>gnl|CDD|239445 cd03329, MR_like_4, Mandelate racemase (MR)-like subfamily of the
enolase superfamily, subgroup 4. Enzymes of this
subgroup share three conserved carboxylate ligands for
the essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and conserved catalytic
residues, a Lys-X-Lys motif and a conserved
histidine-aspartate dyad. This subgroup's function is
unknown.
Length = 368
Score = 62.4 bits (152), Expect = 4e-10
Identities = 27/109 (24%), Positives = 45/109 (41%), Gaps = 4/109 (3%)
Query: 655 SPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTY 714
SP A A G+ AIKL +D + VR+ VG + L D ++
Sbjct: 143 SPEAYADFAEECKALGYRAIKLHPWGPGVVRRDLKACLAVREAVGPDMRLMHDGAHWYSR 202
Query: 715 QEALEFGFLIKDCDLQYIEEPVQNEEDIIKY---CEESGLPVALDETID 760
+AL G +++ + E+P++ E I Y E+ +P+ E
Sbjct: 203 ADALRLGRALEELGFFWYEDPLR-EASISSYRWLAEKLDIPILGTEHSR 250
>gnl|CDD|239437 cd03321, mandelate_racemase, Mandelate racemase (MR) catalyzes the
Mg2+-dependent 1,1-proton transfer reaction that
interconverts the enantiomers of mandelic acid. MR is
the first enzyme in the bacterial pathway that converts
mandelic acid to benzoic acid and allows this pathway to
utilize either enantiomer of mandelate. MR belongs to
the enolase superfamily of enzymes, characterized by the
presence of an enolate anion intermediate which is
generated by abstraction of the alpha-proton of the
carboxylate substrate by an active site residue and is
stabilized by coordination to the essential Mg2+ ion.
Length = 355
Score = 61.7 bits (150), Expect = 6e-10
Identities = 40/135 (29%), Positives = 60/135 (44%), Gaps = 20/135 (14%)
Query: 606 GLEMAILNAIAVKHGSSFLNIL----YPLTEIDEEISKRSTSIKICALIDSNKSPVEVAS 661
G++MA +A+A HG +L P+ D S + L
Sbjct: 103 GIDMAAWDALAKVHGLPLAKLLGGNPRPVQAYD------SHGLDGAKL---------ATE 147
Query: 662 IATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFG 721
A T EEGF A+K K+ +D V++ +R+ VG + L VD N++ T EA+E G
Sbjct: 148 RAVTAAEEGFHAVKTKIGY-PTADEDLAVVRSIRQAVGDGVGLMVDYNQSLTVPEAIERG 206
Query: 722 FLIKDCDLQYIEEPV 736
+ L +IEEP
Sbjct: 207 QALDQEGLTWIEEPT 221
>gnl|CDD|234315 TIGR03695, menH_SHCHC,
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
synthase. This protein catalyzes the formation of
SHCHC, or (1 R,6
R)-2-succinyl-6-hydroxy-2,
4-cyclohexadiene-1-carboxylate, by elmination of
pyruvate from
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylate (SEPHCHC). Note that SHCHC synthase activity
previously was attributed to MenD, which in fact is
SEPHCHC synthase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 252
Score = 58.0 bits (141), Expect = 4e-09
Identities = 20/40 (50%), Positives = 31/40 (77%)
Query: 940 ILLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGSK 979
+L+FLHGFLG+G +W +++ + RC++IDLPGHG S+
Sbjct: 4 VLVFLHGFLGSGADWQALIELLGPHFRCLAIDLPGHGSSQ 43
>gnl|CDD|236855 PRK11126, PRK11126,
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
synthase; Provisional.
Length = 242
Score = 56.4 bits (137), Expect = 1e-08
Identities = 20/40 (50%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGSKM 980
L+FLHG LG+G++W P+ +A+ + IDLPGHGGS
Sbjct: 5 LVFLHGLLGSGQDWQPVGEALPDY-PRLYIDLPGHGGSAA 43
>gnl|CDD|239444 cd03328, MR_like_3, Mandelate racemase (MR)-like subfamily of the
enolase superfamily, subgroup 3. Enzymes of this
subgroup share three conserved carboxylate ligands for
the essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and conserved catalytic
residues, a Lys-X-Lys motif and a conserved
histidine-aspartate dyad. This subgroup's function is
unknown.
Length = 352
Score = 56.7 bits (137), Expect = 3e-08
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 667 VEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKD 726
V +G +K+K+ R DP +D + + R+ +G EL VDAN ++ ++AL D
Sbjct: 150 VAQGIPRVKMKIGR--DPRRDPDRVAAARRAIGPDAELFVDANGAYSRKQALALARAFAD 207
Query: 727 CDLQYIEEPVQNEE 740
+ + EEPV +++
Sbjct: 208 EGVTWFEEPVSSDD 221
>gnl|CDD|162905 TIGR02534, mucon_cyclo, muconate and chloromuconate
cycloisomerases. This model encompasses muconate
cycloisomerase (EC 5.5.1.1) and chloromuconate
cycloisomerase (EC 5.5.1.7), enzymes that often overlap
in specificity. It excludes more distantly related
proteins such as mandelate racemase (5.1.2.2).
Length = 368
Score = 54.8 bits (132), Expect = 1e-07
Identities = 62/287 (21%), Positives = 120/287 (41%), Gaps = 38/287 (13%)
Query: 529 ILSLYLEDGSVGYGE-VAP--LEIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGSFS 585
++ + EDG +GYGE L E+ E ++ + +Y P+L G +
Sbjct: 31 LVRIRTEDGVIGYGEGTTIGGLWWGGESP----ETIKANID-------TYLAPVLVGRDA 79
Query: 586 SWIWSTL----GIPACEIFPSVRCGLEMAILNAIAVKHGSSFLNILYPLTEI-DEEISKR 640
+ I + + + A F + ++ A+ +A A + L + P++E+ +
Sbjct: 80 TEIAAIMADLEKVVAGNRF--AKAAVDTALHDAQARR-----LGV--PVSELLGGRVRD- 129
Query: 641 STSIKICALIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGH 700
S+ + + S + ++A + E+ + KLK+ R DP D + + K +G
Sbjct: 130 --SVDVTWTLASGDTDRDIAEAEERIEEKRHRSFKLKIGAR-DPADDVAHVVAIAKALGD 186
Query: 701 RIELRVDANRNWTYQEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYCEESGLPVALDET 758
R +RVD N W + AL + + D ++ IE+P +N E + + +P+ DE+
Sbjct: 187 RASVRVDVNAAWDERTALHYLPQLADAGVELIEQPTPAENREALARLTRRFNVPIMADES 246
Query: 759 IDKFQKDPLNMLEKYAHPGIVAIVIKPSVIGGFENAGLIARWAQRHG 805
+ P + L +K + GG + IA A+ G
Sbjct: 247 V----TGPADALAIAKASAADVFALKTTKSGGLLESKKIAAIAEAAG 289
>gnl|CDD|217223 pfam02775, TPP_enzyme_C, Thiamine pyrophosphate enzyme, C-terminal
TPP binding domain.
Length = 151
Score = 49.5 bits (119), Expect = 6e-07
Identities = 29/114 (25%), Positives = 46/114 (40%), Gaps = 18/114 (15%)
Query: 329 LSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMKRKPILMLVINNHG-GAIFSL 386
L AIG + ++ V+ + GD F + LA + PI ++V+NN G G
Sbjct: 34 LPAAIGAKLARPDRPVVAIAGDGGFQMNLQELATAVRY--NLPITVVVLNNGGYGMT--- 88
Query: 387 LPIADRTEPRILDQYFYTT------HNISIQNLCLAHGLNHVQVKTKVELEEAL 434
R + Y+ + L A+G +V++ ELEEAL
Sbjct: 89 -----RGQQTPFGGGRYSGPDGKDLPPVDFAKLAEAYGAKGARVESPEELEEAL 137
>gnl|CDD|238318 cd00568, TPP_enzymes, Thiamine pyrophosphate (TPP) enzyme family,
TPP-binding module; found in many key metabolic enzymes
which use TPP (also known as thiamine diphosphate) as a
cofactor. These enzymes include, among others, the E1
components of the pyruvate, the acetoin and the branched
chain alpha-keto acid dehydrogenase complexes.
Length = 168
Score = 48.4 bits (116), Expect = 2e-06
Identities = 37/160 (23%), Positives = 63/160 (39%), Gaps = 15/160 (9%)
Query: 297 THTVADIMLNSEFPHQ-WIRVAGNR-GASGIDGLLSTAIGFAVGC-----NKHVLCVVGD 349
V D ++ + ++ G R S G + + A+G ++ V+C+ GD
Sbjct: 14 AIVVNDAGNSAYWAYRYLPLRRGRRFLTSTGFGAMGYGLPAAIGAALAAPDRPVVCIAGD 73
Query: 350 ISFLHDTNGLAILKQRMKRKPILMLVINNHGGAIFSLLPIADRTEPRILDQYFYTT-HNI 408
F+ LA + P++++V NN G I E + T N
Sbjct: 74 GGFMMTGQELATAVRY--GLPVIVVVFNNGGYGT-----IRMHQEAFYGGRVSGTDLSNP 126
Query: 409 SIQNLCLAHGLNHVQVKTKVELEEALSMSQHLGTDRVIEV 448
L A+G V+V+ +LE AL+ + G +IEV
Sbjct: 127 DFAALAEAYGAKGVRVEDPEDLEAALAEALAAGGPALIEV 166
>gnl|CDD|221720 pfam12697, Abhydrolase_6, Alpha/beta hydrolase family. This family
contains alpha/beta hydrolase enzymes of diverse
specificity.
Length = 187
Score = 49.0 bits (117), Expect = 2e-06
Identities = 16/38 (42%), Positives = 25/38 (65%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGS 978
++ LHG G+ E W P+ +A++ R ++ DLPGHG S
Sbjct: 1 VVLLHGAGGSAESWRPLAEALAAGYRVLAPDLPGHGDS 38
>gnl|CDD|239440 cd03324, rTSbeta_L-fuconate_dehydratase, Human rTS beta is encoded
by the rTS gene which, through alternative RNA splicing,
also encodes rTS alpha whose mRNA is complementary to
thymidylate synthase mRNA. rTS beta expression is
associated with the production of small molecules that
appear to mediate the down-regulation of thymidylate
synthase protein by a novel intercellular signaling
mechanism. A member of this family, from Xanthomonas,
has been characterized to be a L-fuconate dehydratase.
rTS beta belongs to the enolase superfamily of enzymes,
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 415
Score = 49.3 bits (118), Expect = 6e-06
Identities = 29/96 (30%), Positives = 44/96 (45%), Gaps = 7/96 (7%)
Query: 667 VEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKD 726
+ +GFT KLKV AD D + R+ +G +L +DAN+ W EA+E+ + +
Sbjct: 208 LAQGFTHFKLKVG--ADLEDDIRRCRLAREVIGPDNKLMIDANQRWDVPEAIEWVKQLAE 265
Query: 727 CDLQYIEEP-----VQNEEDIIKYCEESGLPVALDE 757
+IEEP + I K + VA E
Sbjct: 266 FKPWWIEEPTSPDDILGHAAIRKALAPLPIGVATGE 301
>gnl|CDD|239439 cd03323, D-glucarate_dehydratase, D-Glucarate dehydratase (GlucD)
catalyzes the dehydration of both D-glucarate and
L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) ,
the initial reaction of the catabolic pathway for
(D)-glucarate. GlucD belongs to the enolase superfamily
of enzymes, characterized by the presence of an enolate
anion intermediate which is generated by abstraction of
the alpha-proton of the carboxylate substrate by an
active site residue and that is stabilized by
coordination to the essential Mg2+ ion.
Length = 395
Score = 48.9 bits (117), Expect = 1e-05
Identities = 26/102 (25%), Positives = 50/102 (49%), Gaps = 6/102 (5%)
Query: 655 SPVEVASIATTLVEE-GFTAIKLKVARRADPIKDAEVIQEVRKKV-GHRIELRVDANRNW 712
+P V +A ++ GF + KLK ++ E ++ + + G R LR+D N W
Sbjct: 168 TPEGVVRLARAAIDRYGFKSFKLKGGVLP-GEEEIEAVKALAEAFPGAR--LRLDPNGAW 224
Query: 713 TYQEALEFGFLIKDCDLQYIEEPVQNEEDIIKYCEESGLPVA 754
+ + A+ ++ L Y+E+P E + ++ +GLP+A
Sbjct: 225 SLETAIRLAKELEG-VLAYLEDPCGGREGMAEFRRATGLPLA 265
>gnl|CDD|184455 PRK14017, PRK14017, galactonate dehydratase; Provisional.
Length = 382
Score = 46.0 bits (110), Expect = 7e-05
Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 27/120 (22%)
Query: 656 PVEVASIATTLVEEGFTAIKLKVARRADPIK-----DAEV--IQEVRKKVGHRIELRVD- 707
P +VA A VE GFTA+K+ I DA V + VR+ VG I + VD
Sbjct: 125 PADVAEAARARVERGFTAVKMNGTEELQYIDSPRKVDAAVARVAAVREAVGPEIGIGVDF 184
Query: 708 --------ANRNWTYQEALEFGFLIKDCDLQYIEEPV--QNEEDIIKYCEESGLPVALDE 757
A + LE +IEEPV +N E + + ++ +P+A E
Sbjct: 185 HGRVHKPMAKV---LAKELE------PYRPMFIEEPVLPENAEALPEIAAQTSIPIATGE 235
>gnl|CDD|239443 cd03327, MR_like_2, Mandelate racemase (MR)-like subfamily of the
enolase superfamily, subgroup 2. Enzymes of this
subgroup share three conserved carboxylate ligands for
the essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and conserved catalytic
residues, a Lys-X-Lys motif and a conserved
histidine-aspartate dyad. This subgroup's function is
unknown.
Length = 341
Score = 43.9 bits (104), Expect = 3e-04
Identities = 24/98 (24%), Positives = 52/98 (53%), Gaps = 6/98 (6%)
Query: 655 SPVEVASIATTLVEEGFTAIKLKVAR-RADPI----KDAEVIQEVRKKVGHRIELRVDAN 709
E+ A ++EG+ +K++ +D K+ E+++ +R+ VG+ ++L +D
Sbjct: 120 DLDELPDEAKEYLKEGYRGMKMRFGYGPSDGHAGLRKNVELVRAIREAVGYDVDLMLDCY 179
Query: 710 RNWTYQEALEFGFLIKDCDLQYIEEPVQNEEDIIKYCE 747
+W A++ ++ +L++IEEP+ +DI Y E
Sbjct: 180 MSWNLNYAIKMARALEKYELRWIEEPLI-PDDIEGYAE 216
>gnl|CDD|238960 cd02002, TPP_BFDC, Thiamine pyrophosphate (TPP) family, BFDC
subfamily, TPP-binding module; composed of proteins
similar to Pseudomonas putida benzoylformate
decarboxylase (BFDC). P. putida BFDC plays a role in the
mandelate pathway, catalyzing the conversion of
benzoylformate to benzaldehyde and carbon dioxide. This
enzyme is dependent on TPP and a divalent metal cation
as cofactors.
Length = 178
Score = 42.2 bits (100), Expect = 4e-04
Identities = 36/148 (24%), Positives = 61/148 (41%), Gaps = 10/148 (6%)
Query: 305 LNSEFPHQWIRVAGNRGASGIDGLLSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILK 363
L P + RG G+ L A+G A+ ++ V+ ++GD SF++ T A+
Sbjct: 35 LPLTRPGSYF---TLRGG-GLGWGLPAAVGAALANPDRKVVAIIGDGSFMY-TIQ-ALWT 88
Query: 364 QRMKRKPILMLVINNHGGAI---FSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGLN 420
P+ ++++NN G F + D I + A G+
Sbjct: 89 AARYGLPVTVVILNNRGYGALRSFLKRVGPEGPGENAPDGLDLLDPGIDFAAIAKAFGVE 148
Query: 421 HVQVKTKVELEEALSMSQHLGTDRVIEV 448
+V+T EL+EAL + G +IEV
Sbjct: 149 AERVETPEELDEALREALAEGGPALIEV 176
>gnl|CDD|184875 PRK14875, PRK14875, acetoin dehydrogenase E2 subunit
dihydrolipoyllysine-residue acetyltransferase;
Provisional.
Length = 371
Score = 43.4 bits (103), Expect = 4e-04
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGS 978
++ +HGF G W+ A++ I++DLPGHG S
Sbjct: 134 VVLIHGFGGDLNNWLFNHAALAAGRPVIALDLPGHGAS 171
>gnl|CDD|238973 cd02015, TPP_AHAS, Thiamine pyrophosphate (TPP) family,
Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding
module; composed of proteins similar to the large
catalytic subunit of AHAS. AHAS catalyzes the
condensation of two molecules of pyruvate to give the
acetohydroxyacid, 2-acetolactate. 2-Acetolactate is the
precursor of the branched chain amino acids, valine and
leucine. AHAS also catalyzes the condensation of
pyruvate and 2-ketobutyrate to form
2-aceto-2-hydroxybutyrate in isoleucine biosynthesis. In
addition to requiring TPP and a divalent metal ion as
cofactors, AHAS requires FAD.
Length = 186
Score = 41.7 bits (99), Expect = 6e-04
Identities = 39/161 (24%), Positives = 62/161 (38%), Gaps = 41/161 (25%)
Query: 310 PHQWIRVAGNRGASGIDGL------LSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAIL 362
P W+ SG GL L AIG V +K V+C+ GD SF + LA
Sbjct: 40 PRSWL-------TSG--GLGTMGFGLPAAIGAKVARPDKTVICIDGDGSFQMNIQELATA 90
Query: 363 KQRMKRKPILMLVINNHG-GAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCL------ 415
Q P+ ++++NN G + R + FY
Sbjct: 91 AQ--YNLPVKIVILNNGSLGMV------------RQWQELFYEGRYSHTTLDSNPDFVKL 136
Query: 416 --AHGLNHVQVKTKVELEEALSMSQHLGTDRVIEVESCIDA 454
A+G+ ++V+ ELE AL + L +D + ++ +D
Sbjct: 137 AEAYGIKGLRVEKPEELEAAL--KEALASDGPVLLDVLVDP 175
>gnl|CDD|132100 TIGR03056, bchO_mg_che_rel, putative magnesium chelatase accessory
protein. Members of this family belong to the
alpha/beta fold family hydrolases (pfam00561). Members
are found in bacterial genomes if and only if they
encoded for anoxygenic photosynthetic systems similar to
that of Rhodobacter capsulatus and other
alpha-Proteobacteria. Members often are encoded in the
same operon as subunits of the protoporphyrin IX
magnesium chelatase, and were once designated BchO. No
literature supports a role as an actual subunit of
magnesium chelatase, but an accessory role is possible,
as suggested by placement by its probable hydrolase
activity [Energy metabolism, Photosynthesis].
Length = 278
Score = 41.8 bits (98), Expect = 0.001
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 940 ILLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGSK 979
+LL LHG + W +M ++ S R ++ DLPGHG ++
Sbjct: 30 LLLLLHGTGASTHSWRDLMPPLARSFRVVAPDLPGHGFTR 69
>gnl|CDD|132920 cd07037, TPP_PYR_MenD, Pyrimidine (PYR) binding domain of
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-
carboxylate synthase (MenD) and related proteins.
Thiamine pyrophosphate (TPP family), pyrimidine (PYR)
binding domain of
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-
carboxylate (SEPHCHC) synthase (MenD) subfamily. The PYR
domain is found in many key metabolic enzymes which use
TPP (also known as thiamine diphosphate) as a cofactor.
TPP binds in the cleft formed by a PYR domain and a PP
domain. The PYR domain, binds the aminopyrimidine ring
of TPP, the PP domain binds the diphosphate residue. The
PYR and PP domains have a common fold, but do not share
strong sequence conservation. The PP domain is not
included in this sub-family. Most TPP-dependent enzymes
have the PYR and PP domains on the same subunit although
these domains can be alternatively arranged in the
primary structure. TPP-dependent enzymes are
multisubunit proteins, the smallest catalytic unit being
a dimer-of-active sites. Escherichia coli MenD (EcMenD)
is a homotetramer (dimer-of-homodimers), having two
active sites per homodimer lying between PYR and PP
domains of different subunits. EcMenD catalyzes a
Stetter-like conjugate addition of alpha-ketoglutarate
to isochorismate, leading to the formation of SEPHCHC
and carbon dioxide, this addition is the first committed
step in the biosynthesis of vitamin K2 (menaquinone).
Length = 162
Score = 39.4 bits (93), Expect = 0.002
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 2 ILTTLDSAVHWATSSPYGPVHINCPF 27
+L + AV A S+P GPVH+N PF
Sbjct: 137 LLRLANRAVLEALSAPPGPVHLNLPF 162
>gnl|CDD|223669 COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta
hydrolase superfamily) [General function prediction
only].
Length = 282
Score = 40.4 bits (93), Expect = 0.003
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGSA---RCISIDLPGHGGS 978
L+ LHGF G+ W P+ K + A R I+ DL GHG S
Sbjct: 24 LVLLHGFPGSSSVWRPVFKVLPALAARYRVIAPDLRGHGRS 64
>gnl|CDD|239441 cd03325, D-galactonate_dehydratase, D-galactonate dehydratase
catalyses the dehydration of galactonate to
2-keto-3-deoxygalactnate (KDGal), as part of the
D-galactonate nonphosphorolytic catabolic
Entner-Doudoroff pathway. D-galactonate dehydratase
belongs to the enolase superfamily of enzymes,
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 352
Score = 39.2 bits (92), Expect = 0.008
Identities = 29/115 (25%), Positives = 48/115 (41%), Gaps = 15/115 (13%)
Query: 655 SPVEVASIATTLVEEGFTAIKLKVARRADPIKDAEVIQE-------VRKKVGHRIELRVD 707
P +VA A E GFTA+K+ I ++ + +R+ VG I++ VD
Sbjct: 123 RPSDVAEAARARREAGFTAVKMNATEELQWIDTSKKVDAAVERVAALREAVGPDIDIGVD 182
Query: 708 ANRNWTYQEALEFGFLIKDCDLQYIEEPVQNEE-----DIIKYCEESGLPVALDE 757
+ + A + ++ L +IEEPV E +I +P+A E
Sbjct: 183 FHGRVSKPMAKDLAKELEPYRLLFIEEPVLPENVEALAEIAARTT---IPIATGE 234
>gnl|CDD|221718 pfam12695, Abhydrolase_5, Alpha/beta hydrolase family. This family
contains a diverse range of alpha/beta hydrolase
enzymes.
Length = 145
Score = 36.6 bits (85), Expect = 0.020
Identities = 13/43 (30%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGS-ARCISIDLPGHGGSKMQN 982
++ LHG G E + P+ +A++ +++D PGHG S
Sbjct: 2 VVLLHGAGGDPEAYAPLARALASRGYNVVAVDYPGHGASLGAP 44
>gnl|CDD|234373 TIGR03846, sulfopy_beta, sulfopyruvate decarboxylase, beta subunit.
Nearly every member of this protein family is the beta
subunit, or else the C-terminal region, of sulfopyruvate
decarboxylase, in an archaeal species capable of
coenzyme M biosynthesis. However, the enzyme also occurs
in Roseovarius nubinhibens ISM in a degradative pathway,
where the resulting sulfoacetaldehyde is desulfonated to
acetyl phosphate, then converted to acetyl-CoA (see
PMID:19581363).
Length = 181
Score = 36.9 bits (86), Expect = 0.022
Identities = 29/124 (23%), Positives = 54/124 (43%), Gaps = 18/124 (14%)
Query: 329 LSTAIGF--AVGCNKHVLCVVGDISFLHDTNGLAILKQRMKRKPILMLVINNHGGAIFSL 386
L+++IG A+ ++ V+ + GD S L + L + + IL+++ N GA S
Sbjct: 46 LASSIGLGLALATDRTVIVIDGDGSLLMNLGVLPTIAAESPKNLILVILDN---GAYGS- 101
Query: 387 LPIADRTEPRILDQYFYTTHNISIQNLCLAHGLNHV-QVKTKVELEEALSMSQHLGTDRV 445
T +Q + ++ + A G+ +V +V + EL +AL G
Sbjct: 102 ------TG----NQPTPASRRTDLELVAKAAGIRNVEKVADEEELRDALKALAMKGP-TF 150
Query: 446 IEVE 449
I V+
Sbjct: 151 IHVK 154
>gnl|CDD|232833 TIGR00118, acolac_lg, acetolactate synthase, large subunit,
biosynthetic type. Two groups of proteins form
acetolactate from two molecules of pyruvate. The type of
acetolactate synthase described in this model also
catalyzes the formation of acetohydroxybutyrate from
pyruvate and 2-oxobutyrate, an early step in the
branched chain amino acid biosynthesis; it is therefore
also termed acetohydroxyacid synthase. In bacteria, this
catalytic chain is associated with a smaller regulatory
chain in an alpha2/beta2 heterotetramer. Acetolactate
synthase is a thiamine pyrophosphate enzyme. In this
type, FAD and Mg++ are also found. Several isozymes of
this enzyme are found in E. coli K12, one of which
contains a frameshift in the large subunit gene and is
not expressed [Amino acid biosynthesis, Pyruvate
family].
Length = 558
Score = 38.2 bits (89), Expect = 0.025
Identities = 33/136 (24%), Positives = 56/136 (41%), Gaps = 17/136 (12%)
Query: 305 LNSEFPHQWIRVAGNRGASGIDGL-LSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAIL 362
P ++I G G G L AIG V V+C+ GD SF + L+
Sbjct: 397 YPFRKPRRFI----TSGGLGTMGFGLPAAIGAKVAKPESTVICITGDGSFQMNLQELSTA 452
Query: 363 KQRMKRKPILMLVINNHGGAIFSLLPIADRTEPRILDQYFYTTHNIS---IQNLCLAHGL 419
Q P+ +L++NN L + + + ++ + TH S L A+G+
Sbjct: 453 VQ--YDIPVKILILNNR------YLGMVRQWQELFYEERYSHTHMGSLPDFVKLAEAYGI 504
Query: 420 NHVQVKTKVELEEALS 435
++++ EL+E L
Sbjct: 505 KGIRIEKPEELDEKLK 520
>gnl|CDD|236014 PRK07418, PRK07418, acetolactate synthase 3 catalytic subunit;
Reviewed.
Length = 616
Score = 37.3 bits (87), Expect = 0.043
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 6/71 (8%)
Query: 310 PHQWIRVAGNRGASGIDGLLSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMKR 368
P +WI AG G G + A+G V ++ V+C+ GD SFL + L L Q
Sbjct: 424 PRRWISSAG-LGTMGFG--MPAAMGVKVALPDEEVICIAGDASFLMNIQELGTLAQY--G 478
Query: 369 KPILMLVINNH 379
+ ++INN
Sbjct: 479 INVKTVIINNG 489
>gnl|CDD|238962 cd02004, TPP_BZL_OCoD_HPCL, Thiamine pyrophosphate (TPP) family,
BZL_OCoD_HPCL subfamily, TPP-binding module; composed of
proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA
decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase
(2-HPCL). Pseudomonas fluorescens biovar I BZL cleaves
the acyloin linkage of benzoin producing 2 molecules of
benzaldehyde and enabling the Pseudomonas to grow on
benzoin as the sole carbon and energy source. OCoD has a
role in the detoxification of oxalate, catalyzing the
decarboxylation of oxalyl-CoA to formate. 2-HPCL is a
peroxisomal enzyme which plays a role in the
alpha-oxidation of 3-methyl-branched fatty acids,
catalyzing the cleavage of 2-hydroxy-3-methylacyl-CoA
into formyl-CoA and a 2-methyl-branched fatty aldehyde.
All these enzymes depend on Mg2+ and TPP for activity.
Length = 172
Score = 35.2 bits (82), Expect = 0.068
Identities = 32/133 (24%), Positives = 49/133 (36%), Gaps = 43/133 (32%)
Query: 260 HVAHELSRALTSNSALFVGNSMAIRDLDMYGRNWTTCTHTVADIMLNSEFPHQWIRVAGN 319
V HEL AL ++ + + D G N T A +L P +
Sbjct: 3 RVLHELQEALPDDAII-------VSD----GGN----TMDWARYILRPRKPRHRLD---- 43
Query: 320 RGASGIDGLLSTAIGFAVGC-----NKHVLCVVGDISFLH-----DTNGLAILKQRMKRK 369
+G G L +G+A+ +K V+ V GD +F +T R
Sbjct: 44 ---AGTFGTLGVGLGYAIAAALARPDKRVVLVEGDGAFGFSGMELET---------AVRY 91
Query: 370 --PILMLVINNHG 380
PI+++V NN G
Sbjct: 92 NLPIVVVVGNNGG 104
>gnl|CDD|238966 cd02008, TPP_IOR_alpha, Thiamine pyrophosphate (TPP) family,
IOR-alpha subfamily, TPP-binding module; composed of
proteins similar to indolepyruvate ferredoxin
oxidoreductase (IOR) alpha subunit. IOR catalyzes the
oxidative decarboxylation of arylpyruvates, such as
indolepyruvate or phenylpyruvate, which are generated by
the transamination of aromatic amino acids, to the
corresponding aryl acetyl-CoA.
Length = 178
Score = 34.6 bits (80), Expect = 0.11
Identities = 31/119 (26%), Positives = 50/119 (42%), Gaps = 24/119 (20%)
Query: 321 GASGIDGLLSTAIGFA-VGCNKHVLCVVGDISFLHDTNG-LAILKQRMKRKPILMLVINN 378
GAS AIG A +K V+ V+GD +F H +G L ++ + I +++++N
Sbjct: 54 GASI-----GVAIGMAKASEDKKVVAVIGDSTFFH--SGILGLINAVYNKANITVVILDN 106
Query: 379 H-----GGAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGLNHVQVKTKVELEE 432
GG P T + + T I I+ L A G+ V V +L+
Sbjct: 107 RTTAMTGGQ-----PHPG-TGKTLTEP----TTVIDIEALVRAIGVKRVVVVDPYDLKA 155
>gnl|CDD|239442 cd03326, MR_like_1, Mandelate racemase (MR)-like subfamily of the
enolase superfamily, subgroup 1. Enzymes of this
subgroup share three conserved carboxylate ligands for
the essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and conserved catalytic
residues, a Lys-X-Lys motif and a conserved
histidine-aspartate dyad. This subgroup's function is
unknown.
Length = 385
Score = 35.8 bits (83), Expect = 0.11
Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 1/69 (1%)
Query: 667 VEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIKD 726
++ G+T +K+K+ A +D I+ +G L VDAN + + A+ + +
Sbjct: 172 LDRGYTVVKIKIGG-APLDEDLRRIEAALDVLGDGARLAVDANGRFDLETAIAYAKALAP 230
Query: 727 CDLQYIEEP 735
L++ EEP
Sbjct: 231 YGLRWYEEP 239
>gnl|CDD|235135 PRK03592, PRK03592, haloalkane dehalogenase; Provisional.
Length = 295
Score = 35.4 bits (82), Expect = 0.13
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGS 978
++FLHG + W I+ ++G RC++ DL G G S
Sbjct: 30 IVFLHGNPTSSYLWRNIIPHLAGLGRCLAPDLIGMGAS 67
>gnl|CDD|239438 cd03322, rpsA, The starvation sensing protein RpsA from E.coli and
its homologs are lactonizing enzymes whose putative
targets are homoserine lactone (HSL)-derivative. They
are part of the mandelate racemase (MR)-like subfamily
of the enolase superfamily. Enzymes of this subfamily
share three conserved carboxylate ligands for the
essential divalent metal ion (usually Mg2+), two
aspartates and a glutamate, and catalytic residues, a
partially conserved Lys-X-Lys motif and a conserved
histidine-aspartate dyad.
Length = 361
Score = 34.7 bits (80), Expect = 0.25
Identities = 32/145 (22%), Positives = 60/145 (41%), Gaps = 21/145 (14%)
Query: 666 LVEEGFTAIKLKVARRADPIKDAEVIQEVRKKVGHRIELRVDANRNWTYQEALEFGFLIK 725
+ +G+ AI++++ + + + VR+K G L D + T +A FG ++
Sbjct: 137 HLAQGYRAIRVQLPK---------LFEAVREKFGFEFHLLHDVHHRLTPNQAARFGKDVE 187
Query: 726 DCDLQYIEEPV--QNEEDIIKYCEESGLPVALDE---TIDKFQKDPLNMLEKYAHPGIVA 780
L ++E+P +N+E + + P+A+ E +I +Q L Y +
Sbjct: 188 PYRLFWMEDPTPAENQEAFRLIRQHTATPLAVGEVFNSIWDWQNLIQERLIDYIRTTVSH 247
Query: 781 IVIKPSVIGGFENAGLIARWAQRHG 805
GG A IA A +G
Sbjct: 248 -------AGGITPARKIADLASLYG 265
>gnl|CDD|224076 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme
metabolism / Lipid metabolism].
Length = 627
Score = 34.9 bits (81), Expect = 0.27
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 14/59 (23%)
Query: 307 SEFPHQWIRVAGNRGASGIDGLLSTAIGFAV-----GCNKHVLCVVGDISFLHDTNGLA 360
E H W V G+ S +S A+G A G +++V+ V+GD + T G+A
Sbjct: 105 EESEHDWFGV-GHSSTS-----ISAALGMAKARDLKGEDRNVVAVIGDGAL---TGGMA 154
>gnl|CDD|130799 TIGR01738, bioH, pimelyl-[acyl-carrier protein] methyl ester
esterase. This CoA-binding enzyme is required for the
production of pimeloyl-coenzyme A, the substrate of the
BioF protein early in the biosynthesis of biotin. Its
exact function is unknown, but is proposed in ref 2.
This enzyme belongs to the alpha/beta hydrolase fold
family (Pfam model pfam00561). Members of this family
are restricted to the Proteobacteria [Biosynthesis of
cofactors, prosthetic groups, and carriers, Biotin].
Length = 245
Score = 33.3 bits (76), Expect = 0.44
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 941 LLFLHGFLGTGEEWIPIMKAVSGSARCISIDLPGHGGSKMQ 981
L+ +HG+ E + + + +S +DLPGHG S+
Sbjct: 7 LVLIHGWGMNAEVFRCLDEELSAHFTLHLVDLPGHGRSRGF 47
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 33.4 bits (77), Expect = 0.49
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 343 VLCVVGDISFLHDTNGLAILKQRMKRKPILMLVINNHGGAIFSLLPIADRTEPRILDQ 400
VV D++ G + R + + ++INN G F+LL D+ I
Sbjct: 55 HRWVVADLT---SEAGREAVLARAREMGGINVLINNAGVNHFALL--EDQDPEAIERL 107
>gnl|CDD|235931 PRK07092, PRK07092, benzoylformate decarboxylase; Reviewed.
Length = 530
Score = 33.4 bits (77), Expect = 0.62
Identities = 34/134 (25%), Positives = 58/134 (43%), Gaps = 14/134 (10%)
Query: 321 GASGIDGL---LSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMKRKPILMLVI 376
ASG GL L A+G A+ + V+ ++GD S ++ L Q + P+ +++
Sbjct: 404 MASG--GLGYGLPAAVGVALAQPGRRVIGLIGDGSAMYSIQALWSAAQL--KLPVTFVIL 459
Query: 377 NNHG-GAIFSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGLNHVQVKTKVELEEALS 435
NN GA+ P+ + LD + L +G V+V EL +AL+
Sbjct: 460 NNGRYGALRWFAPVFGVRDVPGLD-----LPGLDFVALARGYGCEAVRVSDAAELADALA 514
Query: 436 MSQHLGTDRVIEVE 449
+ ++EVE
Sbjct: 515 RALAADGPVLVEVE 528
>gnl|CDD|181601 PRK08978, PRK08978, acetolactate synthase 2 catalytic subunit;
Reviewed.
Length = 548
Score = 32.9 bits (76), Expect = 0.91
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 329 LSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMKRKPILMLVINN 378
L AIG V + V+CV GD SF+ + L +K+ K+ P+ +++++N
Sbjct: 407 LPAAIGAQVARPDDTVICVSGDGSFMMNVQELGTIKR--KQLPVKIVLLDN 455
>gnl|CDD|233105 TIGR00728, OPT_sfam, oligopeptide transporter, OPT superfamily.
This superfamily has two main branches. One branch
contains a tetrapeptide transporter demonstrated
experimentally in three different species of yeast. The
other family contains EspB of Myxococcus xanthus, a
protein required for normal rather than delayed
sporulation after cellular aggregation; its role is
unknown but is compatible with transport of a signalling
molecule. Homology between the two branches of the
superfamily is seen most easily at the ends of the
protein. The central regions are poorly conserved within
each branch and may not be homologous between branches.
Length = 606
Score = 32.8 bits (75), Expect = 0.95
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 15/70 (21%)
Query: 772 KYAHPGI---VAIVIKPS---------VIGGFENAGLIARWAQRHGK---MAVVSAAFES 816
KY +P + I I P+ +GGF N R R V++A +
Sbjct: 532 KYINPPVAVGGGIYIPPATAVNYSTWGAVGGFFNYRWRKRHRARKNAEKYNYVLAAGLIA 591
Query: 817 GLGLSAYIIF 826
G L+ IIF
Sbjct: 592 GEALAGVIIF 601
>gnl|CDD|114248 pfam05515, Viral_NABP, Viral nucleic acid binding. This family is
common to ssRNA positive-strand viruses and are commonly
described as nucleic acid binding proteins (NABP).
Length = 124
Score = 30.5 bits (69), Expect = 1.4
Identities = 11/40 (27%), Positives = 20/40 (50%)
Query: 169 SRITSKRISQMIEECFPCTYILVDNHPCRHDPSHSVTHRI 208
S+ ++R ++ CF C L DNH C+ S + + +
Sbjct: 51 SKCAARRRAKRYNRCFDCGAYLNDNHVCKRFTSRASSDCL 90
>gnl|CDD|222086 pfam13378, MR_MLE_C, Enolase C-terminal domain-like. This domain
appears at the C-terminus of many of the proteins that
carry the MR_MLE, pfam01188 and MR_MLE_N pfam02746
domains. EC:4.2.1.40.
Length = 111
Score = 30.2 bits (69), Expect = 1.6
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 781 IVIKPSVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSA 822
I + +GG A IA A+ G + V E G+GL+A
Sbjct: 22 IQPDVTRVGGITEALKIAALAEAFG-VPVAPHGMEGGIGLAA 62
>gnl|CDD|238965 cd02007, TPP_DXS, Thiamine pyrophosphate (TPP) family, DXS
subfamily, TPP-binding module;
1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a
regulatory enzyme of the mevalonate-independent pathway
involved in terpenoid biosynthesis. Terpeniods are plant
natural products with important pharmaceutical activity.
DXS catalyzes a transketolase-type condensation of
pyruvate with D-glyceraldehyde-3-phosphate to form
1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide.
The formation of DXP leads to the formation of the
terpene precursor IPP (isopentyl diphosphate) and to the
formation of thiamine (vitamin B1) and pyridoxal
(vitamin B6).
Length = 195
Score = 31.4 bits (72), Expect = 1.7
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 14/59 (23%)
Query: 307 SEFPHQWIRVAGNRGASGIDGLLSTAIGFAV-----GCNKHVLCVVGDISFLHDTNGLA 360
SE + G+ S +S A+G AV G + V+ V+GD + T G+A
Sbjct: 65 SESEYDAF-GTGHSSTS-----ISAALGMAVARDLKGKKRKVIAVIGDGAL---TGGMA 114
>gnl|CDD|107352 cd06357, PBP1_AmiC, Periplasmic binding domain of amidase (AmiC)
that belongs to the type I periplasmic binding fold
protein family. This group includes the periplasmic
binding domain of amidase (AmiC) that belongs to the
type I periplasmic binding fold protein family. AmiC
controls expression of the amidase operon by the
ligand-triggered conformational switch. In the absence
of ligand or presence of butyramide (repressor), AmiC
(the ligand sensor and negative regulator) adopts an
open conformation and inhibits the transcription
antitermination function of AmiR by direct
protein-protein interaction. In the presence of
inducing ligands such as acetamide, AmiC adopts a closed
conformation which disrupts a silencing AmiC-AmiR
complex and the expression of amidase and other genes of
the operon are induced.
Length = 360
Score = 31.8 bits (73), Expect = 1.8
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 786 SVIGGFENAGLIARWAQRHGKMAVVSAAFESGLGLSAYI 824
S I N +AR+ R G+ A VSA E +AY
Sbjct: 250 SSIDTPANRAFVARYRARFGEDAPVSACAE-----AAYF 283
>gnl|CDD|222124 pfam13433, Peripla_BP_5, Periplasmic binding protein domain. This
domain is found in a variety of bacterial periplasmic
binding proteins.
Length = 363
Score = 31.7 bits (73), Expect = 2.1
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 5/35 (14%)
Query: 792 ENAGLIARWAQRHGKMAVVSAAFESGLGLSAYIIF 826
EN +A + R+G V + E +AYI
Sbjct: 255 ENKAFVAAFKARYGDDRVTNDPME-----AAYIQV 284
>gnl|CDD|205856 pfam13680, DUF4152, Protein of unknown function (DUF4152). This
family of proteins is functionally uncharacterized. This
family of proteins is found in archaea. Proteins in this
family are approximately 230 amino acids in length. The
structure of PF2046 from pyrococcus furiosus has been
solved. It shows an RNaseH like fold that conserves
critical catalytic residues. This suggests that these
proteins may cleave nucleic acid.
Length = 227
Score = 31.0 bits (70), Expect = 2.4
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 648 ALIDSNKSPVEVASIATTLVEEGFTAIKLKVARRADPIK-DAEVIQEVRKKVGHRIEL 704
A++D + P+ + + A LVE+ + K + + ADP D Q ++ +V IEL
Sbjct: 11 AVLDESYEPIGLIATAAVLVEKPYKTAKESIVKYADPFNYDLSGRQAIKDEVFLAIEL 68
>gnl|CDD|182354 PRK10281, PRK10281, hypothetical protein; Provisional.
Length = 299
Score = 31.2 bits (71), Expect = 2.8
Identities = 27/102 (26%), Positives = 41/102 (40%), Gaps = 24/102 (23%)
Query: 546 PLEIHKENLLDAEEQLRFLLHFMTGAKISYFLPLLKGSFSSWIWSTLGIPACEIFPSVRC 605
P++I KEN MT F P L+G + I + LG+ +I P
Sbjct: 106 PVDIEKEN--------DDYRISMTQGTPE-FEPPLEGETRAAIINALGLTEDDILP---- 152
Query: 606 GLEMAILNA------IAVKHGSSFLNILYP----LTEIDEEI 637
GL + + + I +K L+ L P LT I ++I
Sbjct: 153 GLPIQVASTGHSKVMIPLKPEVD-LDALSPNLAALTAISKQI 193
>gnl|CDD|128971 smart00732, YqgFc, Likely ribonuclease with RNase H fold. YqgF
proteins are likely to function as an alternative to
RuvC in most bacteria, and could be the principal
holliday junction resolvases in low-GC Gram-positive
bacteria. In Spt6p orthologues, the catalytic residues
are substituted indicating that they lack enzymatic
functions.
Length = 99
Score = 29.1 bits (66), Expect = 2.9
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 11/58 (18%)
Query: 146 LDHALLSESVKDWIQFDVIIQIG---------SRITSKRISQMIEECFPCTYILVDNH 194
D A L + +K + Q D+I+ IG SR T + +++++E F +LVD
Sbjct: 38 ADAARLKKLIKKY-QPDLIV-IGLPLNMNGTASRETEEAFAELLKERFNLPVVLVDER 93
>gnl|CDD|173871 cd08506, PBP2_clavulanate_OppA2, The substrate-binding domain of an
oligopeptide binding protein (OppA2) from the
biosynthesis pathway of the beta-lactamase inhibitor
clavulanic acid contains the type 2 periplasmic binding
fold. Clavulanic acid (CA), a clinically important
beta-lactamase inhibitor, is one of a family of clavams
produced as secondary metabolites by fermentation of
Streptomyces clavuligeru. The biosynthesis of CA
proceeds via multiple steps from the precursors,
glyceraldehyde-3-phosphate and arginine. CA possesses a
characteristic (3R,5R) stereochemistry essential for
reaction with penicillin-binding proteins and
beta-lactamases. Two genes (oppA1 and oppA2) in the
clavulanic acid gene cluster encode oligopeptide-binding
proteins that are required for CA biosynthesis. OppA1/2
is involved in the binding and transport of peptides
across the cell membrane of Streptomyces clavuligerus.
Most of other periplasmic binding proteins are comprised
of only two globular subdomains corresponding to domains
I and III of the dipeptide/oligopeptide binding
proteins. The structural topology of these domains is
most similar to that of the type 2 periplasmic binding
proteins (PBP2), which are responsible for the uptake of
a variety of substrates such as phosphate, sulfate,
polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis. Besides transport proteins, the PBP2
superfamily includes the ligand-binding domains from
ionotropic glutamate receptors, LysR-type
transcriptional regulators, and unorthodox sensor
proteins involved in signal transduction.
Length = 466
Score = 31.1 bits (71), Expect = 3.3
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 666 LVEEGFTAIKLKVARRADP--IKDAEVIQEVRKKVGHRIELRVDANRNWTY 714
L E G +KL +A R K AE +Q + G I++ + + TY
Sbjct: 311 LAEAGVPGLKLTLAYRDTAVDKKIAEALQASLARAG--IDVTLKPIDSATY 359
>gnl|CDD|214363 CHL00099, ilvB, acetohydroxyacid synthase large subunit.
Length = 585
Score = 31.2 bits (71), Expect = 3.4
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 310 PHQWIRVAGNRGASGIDGLLSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMKR 368
P +W+ AG G G L AIG + N+ V+C+ GD SF + L + Q
Sbjct: 420 PRKWLSSAG-LGTMGYG--LPAAIGAQIAHPNELVICISGDASFQMNLQELGTIAQY--N 474
Query: 369 KPILMLVINNH 379
PI +++INN
Sbjct: 475 LPIKIIIINNK 485
>gnl|CDD|235700 PRK06112, PRK06112, acetolactate synthase catalytic subunit;
Validated.
Length = 578
Score = 30.9 bits (70), Expect = 4.0
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 315 RVAGNRGASGIDGLLSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMKRKPILM 373
R RG +G+ + AIG V V+C+VGD F H L + RM P+ +
Sbjct: 429 RFLTPRGLAGLGWGVPMAIGAKVARPGAPVICLVGDGGFAHVWAELETAR-RM-GVPVTI 486
Query: 374 LVINN 378
+V+NN
Sbjct: 487 VVLNN 491
>gnl|CDD|236076 PRK07710, PRK07710, acetolactate synthase catalytic subunit;
Reviewed.
Length = 571
Score = 30.5 bits (69), Expect = 4.9
Identities = 34/152 (22%), Positives = 63/152 (41%), Gaps = 19/152 (12%)
Query: 310 PHQWIRVAGNRGASGIDGLLSTAIGFAVG-CNKHVLCVVGDISFLHDTNGLAILKQRMKR 368
P +W+ +G G G L AIG + ++ V+ +VGD F L+++K+
Sbjct: 414 PDKWV-TSGGLGTMGFG--LPAAIGAQLAKPDETVVAIVGDGGFQMTLQELSVIKEL--S 468
Query: 369 KPILMLVINNHG-GAIFSLLPIADRTEPRILDQYFYTTHNISIQ----NLCLAHGLNHVQ 423
P+ ++++NN G + R Y+ +S Q L A+G+ V+
Sbjct: 469 LPVKVVILNNEALGMV--------RQWQEEFYNQRYSHSLLSCQPDFVKLAEAYGIKGVR 520
Query: 424 VKTKVELEEALSMSQHLGTDRVIEVESCIDAN 455
+ ++E +E L + L VI+
Sbjct: 521 IDDELEAKEQLQHAIELQEPVVIDCRVLQSEK 552
>gnl|CDD|132918 cd07035, TPP_PYR_POX_like, Pyrimidine (PYR) binding domain of POX
and related proteins. Thiamine pyrophosphate (TPP
family), pyrimidine (PYR) binding domain of pyruvate
oxidase (POX) and related protiens subfamily. The PYR
domain is found in many key metabolic enzymes which use
TPP (also known as thiamine diphosphate) as a cofactor.
TPP binds in the cleft formed by a PYR domain and a PP
domain. The PYR domain, binds the aminopyrimidine ring
of TPP, the PP domain binds the diphosphate residue. A
polar interaction between the conserved glutamate of the
PYR domain and the N1' of the TPP aminopyrimidine ring
is shared by most TPP-dependent enzymes, and
participates in the activation of TPP. For glyoxylate
carboligase, which belongs to this subfamily, but lacks
this conserved glutamate, the rate of the initial TPP
activation step is reduced but the ensuing steps of the
enzymic reaction proceed efficiently. The PYR and PP
domains have a common fold, but do not share strong
sequence conservation. The PP domain is not included in
this sub-family. Most TPP-dependent enzymes have the PYR
and PP domains on the same subunit although these
domains can be alternatively arranged in the primary
structure. TPP-dependent enzymes are multisubunit
proteins, the smallest catalytic unit being a
dimer-of-active sites, for many the active sites lie
between PP and PYR domains on different subunits. POX
decarboxylates pyruvate, producing hydrogen peroxide and
the energy-storage metabolite acetylphosphate. This
subfamily includes pyruvate decarboxylase (PDC) and
indolepyruvate decarboxylase (IPDC). PDC catalyzes the
conversion of pyruvate to acetaldehyde and CO2 in
alcoholic fermentation. IPDC plays a role in the
indole-3-pyruvic acid (IPA) pathway in plants and
various plant-associated bacteria, it catalyzes the
decarboxylation of IPA to IAA. This subfamily also
includes the large catalytic subunit of acetohydroxyacid
synthase (AHAS). AHAS catalyzes the condensation of two
molecules of pyruvate to give the acetohydroxyacid,
2-acetolactate, a precursor of the branched chain amino
acids, valine and leucine. AHAS also catalyzes the
condensation of pyruvate and 2-ketobutyrate to form
2-aceto-2-hydroxybutyrate in isoleucine biosynthesis.
Methanococcus jannaschii sulfopyruvate decarboxylase
(MjComDE) and phosphonopyruvate decarboxylase (PpyrDc)
also belong to this subfamily. PpyrDc is a homotrimeric
enzyme having the PP and PYR domains tandemly arranged
on the same subunit. It functions in the biosynthesis of
C-P compounds such as bialaphos tripeptide in
Streptomyces hygroscopicus. MjComDE is a dodecamer
having the PYR and PP domains on different subunits, it
has six alpha (PYR/ComD) subunits and six beta (PP/ComE)
subunits. MjComDE catalyzes the decarboxylation of
sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M
pathway.
Length = 155
Score = 29.4 bits (67), Expect = 5.9
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 2 ILTTLDSAVHWATSSPYGPVHINCP 26
I L A A S GPV ++ P
Sbjct: 130 IPEALRRAFRIALSGRPGPVALDLP 154
>gnl|CDD|233337 TIGR01273, speA, arginine decarboxylase, biosynthetic. Two
alternative pathways can convert arginine to putrescine.
One is decarboxylation by this enzyme followed by
removal of the urea moeity by agmatinase. In the other,
the ureohydrolase (arginase) acts first, followed by
ornithine decarboxylase. This pathway leads to
spermidine biosynthesis, hence the gene symbol speA. A
distinct biodegradative form is also pyridoxal
phosphate-dependent but is not similar in sequence
[Central intermediary metabolism, Polyamine
biosynthesis].
Length = 624
Score = 30.4 bits (69), Expect = 5.9
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 250 ICADYSLTEPHVAHELSRALTSNSALFVGNSM 281
IC + + P + E RA+T++ A+ + N +
Sbjct: 319 ICEEKGVPHPVIITESGRAITAHHAVLITNVL 350
>gnl|CDD|217401 pfam03169, OPT, OPT oligopeptide transporter protein. The OPT
family of oligopeptide transporters is distinct from the
ABC pfam00005 and PTR pfam00854 transporter families.
OPT transporters were first recognised in fungi (Candida
albicans and Schizosaccharomyces pombe), but this
alignment also includes orthologues from Arabidopsis
thaliana. OPT transporters are thought to have 12-14
transmembrane domains and contain the following motif:
SPYxEVRxxVxxxDDP.
Length = 619
Score = 30.0 bits (68), Expect = 6.7
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 6/59 (10%)
Query: 774 AHPGIVAIVIKPSVIGGFENAGLIARWAQRHGK------MAVVSAAFESGLGLSAYIIF 826
A G + + PS+ GL + +R K V++A +G L II
Sbjct: 558 AGAGTIGPYLPPSLTSAILVGGLFNYYVRRRRKAWWRKYNYVLAAGLIAGEALMGVIIA 616
>gnl|CDD|181458 PRK08527, PRK08527, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 563
Score = 30.1 bits (68), Expect = 7.1
Identities = 32/145 (22%), Positives = 62/145 (42%), Gaps = 17/145 (11%)
Query: 309 FPHQWIRVAGNRGASGIDGLLSTAIGFAVGC-NKHVLCVVGDISFLHDTNGLAILKQRMK 367
+P Q +G G G L A+G + +K V+ GD S L + L +
Sbjct: 403 YPRQLA-TSGGLGTMGYG--LPAALGAKLAVPDKVVINFTGDGSILMNIQELMTAVE--Y 457
Query: 368 RKPILMLVINNHGGAIFSLLPIADRTEPRILDQYFYTTHNISIQ----NLCLAHGLNHVQ 423
+ P++ +++NN+ L + + + ++ + T ++S Q L + G +
Sbjct: 458 KIPVINIILNNN------FLGMVRQWQTFFYEERYSET-DLSTQPDFVKLAESFGGIGFR 510
Query: 424 VKTKVELEEALSMSQHLGTDRVIEV 448
V TK E ++AL + +I+V
Sbjct: 511 VTTKEEFDKALKEALESDKVALIDV 535
>gnl|CDD|165939 PLN02298, PLN02298, hydrolase, alpha/beta fold family protein.
Length = 330
Score = 29.7 bits (67), Expect = 7.1
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 940 ILLFLHGFLGTGEEWI----PIMKAVSGSARCISIDLPGHGGS 978
++ +HG+ G W I A G A C ++DL GHG S
Sbjct: 61 LIFMVHGY-GNDISWTFQSTAIFLAQMGFA-CFALDLEGHGRS 101
>gnl|CDD|107326 cd06331, PBP1_AmiC_like, Type I periplasmic components of
amide-binding protein (AmiC) and the active transport
system for short-chain and urea (FmdDEF). This group
includes the type I periplasmic components of
amide-binding protein (AmiC) and the active transport
system for short-chain and urea (FmdDEF), found in
bacteria and Archaea. AmiC controls expression of the
amidase operon by a ligand-triggered conformational
switch. In the absence of ligand or presence of
butyramide (repressor), AmiC (the ligand sensor and
negative regulator) adopts an open conformation and
inhibits the transcription antitermination function of
AmiR by direct protein-protein interaction. In the
presence of inducing ligands such as acetamide, AmiC
adopts a closed conformation which disrupts a silencing
AmiC-AmiR complex and the expression of amidase and
other genes of the operon is induced. FmdDEF is
predicted to be an ATP-dependent transporter and closely
resembles the periplasmic binding protein and the two
transmembrane proteins present in various hydrophobic
amino acid-binding transport systems.
Length = 333
Score = 29.8 bits (68), Expect = 7.2
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 792 ENAGLIARWAQRHGKMAVVSAAFES 816
EN +AR+ R+G AV+++ E+
Sbjct: 254 ENKAFVARYRARYGDDAVINSPAEA 278
>gnl|CDD|239224 cd02894, GGTase-II, Geranylgeranyltransferase type II
(GGTase-II)_like proteins containing the protein
prenyltransferase (PTase) domain, beta subunit (alpha 6
- alpha 6 barrel fold). GGTase-IIs are a subgroup of the
protein prenyltransferase family of lipid-modifying
enzymes. PTases catalyze the carboxyl-terminal
lipidation of Ras, Rab, and several other cellular
signal transduction proteins, facilitating membrane
associations and specific protein-protein interactions.
Prenyltransferases employ a Zn2+ ion to alkylate a thiol
group catalyzing the formation of thioether linkages
between cysteine residues at or near the C-terminus of
protein acceptors and the C1 atom of isoprenoid lipids
(geranylgeranyl (20-carbon) in the case of GGTase-II ).
GGTase-II catalyzes alkylation of both cysteine residues
in Rab proteins containing carboxy-terminal "CC", "CXCX"
or "CXC" motifs. PTases are heterodimeric with both
alpha and beta subunits required for catalytic activity.
In contrast to other prenyltransferases, GGTas-II
requires an escort protein to bring the substrate
protein to the catalytic heterodimer and to escort the
geryanylgeranylated product to the membrane.
Length = 287
Score = 29.5 bits (67), Expect = 8.2
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 16/80 (20%)
Query: 500 YSLYRIQ-LCAPPTSSYIDHNRSRFCREGFILSLYLEDGSV---GYGE---------VAP 546
+L IQ L + ID N+ + + FI L EDGS +GE V
Sbjct: 81 STLSAIQILALYDLLNKIDENKEKIAK--FIKGLQNEDGSFSGDKWGEVDTRFSYCAVLC 138
Query: 547 LEI-HKENLLDAEEQLRFLL 565
L + K +L+D ++ + +LL
Sbjct: 139 LTLLGKLDLIDVDKAVDYLL 158
>gnl|CDD|180751 PRK06922, PRK06922, hypothetical protein; Provisional.
Length = 677
Score = 29.8 bits (67), Expect = 8.2
Identities = 24/93 (25%), Positives = 44/93 (47%), Gaps = 11/93 (11%)
Query: 362 LKQRMK-RKPILMLVINNHGGA-IFSLLPIADRTEPRILDQYFYTTHNISIQNLCLAHGL 419
LKQR + +K + L+++N G A IFS D ++ +T + IQ+L HGL
Sbjct: 89 LKQREQWKKKGINLLVHNEGSADIFS-----DIQFIERVETNLNSTEYLFIQDLIRTHGL 143
Query: 420 NHVQVKTKVELEEALSM----SQHLGTDRVIEV 448
++ + L+ + + + G R+ E+
Sbjct: 144 IGQYIRGEARLDSHVPLINTYKEEYGDVRLKEI 176
>gnl|CDD|143454 cd07136, ALDH_YwdH-P39616, Bacillus subtilis aldehyde dehydrogenase
ywdH-like. Uncharacterized Bacillus subtilis ywdH
aldehyde dehydrogenase (locus P39616) most closely
related to the ALDHs and fatty ALDHs of families 3 and
14, and similar sequences, are included in this CD.
Length = 449
Score = 29.8 bits (68), Expect = 9.1
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 172 TSKRISQMIEECFPCTYILV 191
TSK I+++IEE F Y+ V
Sbjct: 142 TSKVIAKIIEETFDEEYVAV 161
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
0.323 0.137 0.416
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 49,721,247
Number of extensions: 4957832
Number of successful extensions: 4519
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4435
Number of HSP's successfully gapped: 96
Length of query: 983
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 877
Effective length of database: 6,236,078
Effective search space: 5469040406
Effective search space used: 5469040406
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 (22.0 bits)
S2: 64 (28.4 bits)