RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11092
(278 letters)
>gnl|CDD|215401 PLN02752, PLN02752, [acyl-carrier protein] S-malonyltransferase.
Length = 343
Score = 166 bits (422), Expect = 2e-49
Identities = 69/166 (41%), Positives = 98/166 (59%), Gaps = 3/166 (1%)
Query: 80 ASKPYPKHYDPRQSQAQHSLRPKTDPRDTSIIMFPGQGTQFVGMGGDLIKTLPMAKDLFE 139
AS SQA + D + T+ +FPGQG Q VGMG + +P AK LF+
Sbjct: 11 ASASRVSMSVSVGSQATAADALFADYKPTTAFLFPGQGAQAVGMGKEA-AEVPAAKALFD 69
Query: 140 EASAILKFDLLKLCLEGPASELNKTIHAQAAVFVCSIGALEKLR--EERPAAIENCVATL 197
+AS IL +DLL +C+ GP +L+ T+ +Q A++V S+ A+EKLR + A I++
Sbjct: 70 KASEILGYDLLDVCVNGPKEKLDSTVVSQPAIYVASLAAVEKLRARDGGQAVIDSVDVCA 129
Query: 198 GFSLGEITALTFSGVFDYETALELIKIRSQAMQLACEIAPGGMASV 243
G SLGE TAL F+G +E L+L+K+R +AMQ A + P GM SV
Sbjct: 130 GLSLGEYTALVFAGALSFEDGLKLVKLRGEAMQAAADAGPSGMVSV 175
>gnl|CDD|232839 TIGR00128, fabD, malonyl CoA-acyl carrier protein transacylase.
This enzyme of fatty acid biosynthesis transfers the
malonyl moeity from coenzyme A to acyl-carrier protein.
The seed alignment for this family of proteins contains
a single member each from a number of bacterial species
but also an additional pair of closely related,
uncharacterized proteins from B. subtilis, one of which
has a long C-terminal extension [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 290
Score = 149 bits (378), Expect = 1e-43
Identities = 71/153 (46%), Positives = 95/153 (62%), Gaps = 3/153 (1%)
Query: 112 MFPGQGTQFVGMGGDLIKTLPMAKDLFEEASAILKFDLLKLCLEGPASELNKTIHAQAAV 171
+FPGQG+Q VGMG DL + P+AK+LF++AS L +DL KLC EGPA ELNKT + Q A+
Sbjct: 6 VFPGQGSQTVGMGKDLYEQYPIAKELFDQASEALGYDLKKLCQEGPAEELNKTQYTQPAL 65
Query: 172 FVCSIGALEKLREERPAAIENCVATLGFSLGEITALTFSGVFDYETALELIKIRSQAMQL 231
+V S KL+E+ + G SLGE +AL +G D+ETAL+L+K R + MQ
Sbjct: 66 YVVSAILYLKLKEQGGLKPD---FAAGHSLGEYSALVAAGALDFETALKLVKKRGELMQE 122
Query: 232 ACEIAPGGMASVMYGPDSQLNLAMKRAKEWCVD 264
A G MA+V+ + QL A + A E VD
Sbjct: 123 AVPEGGGAMAAVIGLDEEQLAQACEEATENDVD 155
>gnl|CDD|223408 COG0331, FabD, (acyl-carrier-protein) S-malonyltransferase [Lipid
metabolism].
Length = 310
Score = 147 bits (374), Expect = 9e-43
Identities = 61/148 (41%), Positives = 83/148 (56%), Gaps = 2/148 (1%)
Query: 113 FPGQGTQFVGMGGDLIKTLPMAKDLFEEASAILKFDLLKLCLEGPASELNKTIHAQAAVF 172
FPGQG+Q +GMG DL + P AK+ F+EA L FDL L EGP ELN T + Q A+
Sbjct: 8 FPGQGSQSLGMGKDLYENSPEAKETFDEADEALGFDLWALVFEGPEEELNLTQNTQPALL 67
Query: 173 VCSIGALEKLREERPAAIENCVATLGFSLGEITALTFSGVFDYETALELIKIRSQAMQLA 232
+ S+ A L E+ G SLGE +AL +GV +E AL+L++ R + MQ A
Sbjct: 68 LVSLAAYRVLAEQGLGV--KPDFVAGHSLGEYSALAAAGVLSFEDALKLVRKRGKLMQEA 125
Query: 233 CEIAPGGMASVMYGPDSQLNLAMKRAKE 260
GGMA+V+ D Q+ A + A +
Sbjct: 126 VPRGEGGMAAVLGLDDEQVEKACEEAAQ 153
>gnl|CDD|214838 smart00827, PKS_AT, Acyl transferase domain in polyketide synthase
(PKS) enzymes.
Length = 298
Score = 94.8 bits (237), Expect = 9e-23
Identities = 48/145 (33%), Positives = 70/145 (48%), Gaps = 17/145 (11%)
Query: 112 MFPGQGTQFVGMGGDLIKTLPMAKDLFEEASAILK----FDLL-KLCLEGPASELNKTIH 166
+F GQG+Q+ GMG +L +T P+ ++ +E A L+ + LL L E A+ L T
Sbjct: 1 VFTGQGSQWAGMGRELYETEPVFREALDECDAALQPLLGWSLLDVLLGEDGAASLLDTEV 60
Query: 167 AQAAVFVCSIGALEKLREE---RPAAIENCVATLGFSLGEITALTFSGVFDYETALELIK 223
AQ A+F + AL +L RP A+ +G S GEI A +GV E A L+
Sbjct: 61 AQPALFAVQV-ALARLLRSWGVRPDAV------VGHSSGEIAAAYVAGVLSLEDAARLVA 113
Query: 224 IRSQAMQLACEIAPGGMASVMYGPD 248
R + MQ G M +V +
Sbjct: 114 ARGRLMQALP--GGGAMLAVGLSEE 136
>gnl|CDD|225858 COG3321, COG3321, Polyketide synthase modules and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 1061
Score = 84.0 bits (208), Expect = 3e-18
Identities = 51/176 (28%), Positives = 73/176 (41%), Gaps = 27/176 (15%)
Query: 112 MFPGQGTQFVGMGGDLIKTLPMAKDLFEEASA----ILKFDLLKLCLEGPASELNKTIHA 167
+FPGQG+Q+ GMG +L P+ F+ A +L F L ++ L A
Sbjct: 530 VFPGQGSQWAGMGRELYALEPVFASAFDALEALLHRLLGFSLPEVIFAPDYPFLESIDFA 589
Query: 168 QAAVFVCSIGALEKLREE---RPAAIENCVATLGFSLGEITALTFSGVFDYETALELIKI 224
Q A+F S+ AL L P A+ +G SLGE+ A +GV E AL ++
Sbjct: 590 QPALFAVSV-ALAALWRSWGVIPGAV------IGHSLGELAAAVAAGVLSLEDALRVVAT 642
Query: 225 RSQAMQLACEIAPGGMASVMYGP-----------DSQLNLAMKRAKEWCVDRGIPE 269
R + MQ G M +V Q+ LA + + V G PE
Sbjct: 643 RGRLMQQLA--GEGAMLAVELSLLAEVQELLALGRPQVPLAAVNSPQQVVIAGDPE 696
>gnl|CDD|144338 pfam00698, Acyl_transf_1, Acyl transferase domain.
Length = 319
Score = 80.9 bits (200), Expect = 1e-17
Identities = 49/138 (35%), Positives = 65/138 (47%), Gaps = 16/138 (11%)
Query: 113 FPGQGTQFVGMGGDLIKTLPMAKDLFEEASAILK----FDLLKLCLEGPASELNKTIHAQ 168
F GQG+Q+ GMG DL+KT P+ K F +L + P L + Q
Sbjct: 4 FSGQGSQWAGMGMDLLKTSPVFAAAIARCDEAFKPQYGFSVLDVLRNNPEGLLERVDVVQ 63
Query: 169 AAVFVCSIGALEKLREE--RPAAIENCVATLGFSLGEITALTFSGVFDYETALELIKIRS 226
A+F I LR PAA+ +G SLGEI A +G E A ++ +RS
Sbjct: 64 PALFAMQIALAALLRSYGVTPAAV------VGHSLGEIAAAVVAGALSLEEAALVVALRS 117
Query: 227 QAM-QLACEIAPGGMASV 243
+ M QLA PGGMA+V
Sbjct: 118 RLMRQLA---GPGGMAAV 132
>gnl|CDD|132175 TIGR03131, malonate_mdcH, malonate decarboxylase, epsilon subunit.
Members of this protein family are the epsilon subunit
of malonate decarboxylase. This subunit has
malonyl-CoA/dephospho-CoA acyltransferase activity.
Malonate decarboxylase may be a soluble enzyme, or
linked to membrane subunits and active as a sodium pump.
The epsilon subunit is closely related to the malonyl
CoA-acyl carrier protein (ACP) transacylase family
described by TIGR00128, but acts on an ACP subunit of
malonate decarboxylase that has an unusual coenzyme A
derivative as its prothetic group.
Length = 295
Score = 79.3 bits (196), Expect = 3e-17
Identities = 44/145 (30%), Positives = 65/145 (44%), Gaps = 13/145 (8%)
Query: 109 SIIMFPGQGTQFVGMGGDLIKTLPMAKDLFEEASAILKFDLLKLCLEGPASELNKTIHAQ 168
++FPGQG+Q GM +L P + EAS +L D +L A L T AQ
Sbjct: 1 IALLFPGQGSQRAGMLAEL-PDHPAVAAVLAEASDVLGIDPREL---DDAEALASTRSAQ 56
Query: 169 AAVFVCSIGALEKLREERPAAIENCVATLGFSLGEITALTFSGVFDYETALELIKIRSQA 228
+ + A L P VA G+S+GE A +GV ++ AL L+ +R+
Sbjct: 57 LCILAAGVAAWRALLALLPRPS--AVA--GYSVGEYAAAVVAGVLTFDDALRLVALRAAL 112
Query: 229 MQLACEIAPG--GMASVMYGPDSQL 251
M A PG GM +V+ + +
Sbjct: 113 MDQAV---PGGYGMLAVLGLDLAAV 134
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are
encoded near genes for homologs of PfaB, PfaC, and/or
PfaD.
Length = 2582
Score = 46.2 bits (109), Expect = 1e-05
Identities = 41/148 (27%), Positives = 61/148 (41%), Gaps = 19/148 (12%)
Query: 112 MFPGQGTQFVGMGGDLIKTLP----MAKDLFEEASAILKFDLLKLCLEGPA--------- 158
+F GQG+Q++ MG +L P A D+ + K L + P
Sbjct: 584 LFAGQGSQYLNMGRELACNFPEVRQAAADMDSVFTQAGKGALSPVLYPIPVFNDESRKAQ 643
Query: 159 -SELNKTIHAQAAVFVCSIGALEKLREERPAAIENCVATLGFSLGEITALTFSGVFDYET 217
L T HAQ+A+ S+G + + A T G S GE++AL +GV +
Sbjct: 644 EEALTNTQHAQSAIGTLSMGQYKLFTQAGFKAD----MTAGHSFGELSALCAAGVISDDD 699
Query: 218 ALELIKIRSQAM-QLACEIAPGGMASVM 244
+ L R QAM E G M +V+
Sbjct: 700 YMMLAFSRGQAMAAPTGEADIGFMYAVI 727
>gnl|CDD|237108 PRK12467, PRK12467, peptide synthase; Provisional.
Length = 3956
Score = 32.1 bits (73), Expect = 0.44
Identities = 36/151 (23%), Positives = 51/151 (33%), Gaps = 39/151 (25%)
Query: 130 TLPMAKDLFEEASAILKFDLLKLCLEGPASELNKTIHAQAAVFVCSIGALEKLR-EERPA 188
A DLFE + E A+ + A A +G L L EER
Sbjct: 449 AFTYATDLFEATTI-----------ERLATHWRNLLEAIVAEPRRRLGELPLLDAEERAR 497
Query: 189 AIE--NCVATLGFSLG-------------EITALTFSG-VFDYETALELIKIRSQAMQLA 232
+ N AT E AL F V Y ++ QA +LA
Sbjct: 498 ELVRWNAPATEYAPDCVHQLIEAQARQHPERPALVFGEQVLSYA------ELNRQANRLA 551
Query: 233 CEIAPGGMASVMYGPDSQLNLAMKRAKEWCV 263
+ G+ GPD + +A++R+ E V
Sbjct: 552 HVLIAAGV-----GPDVLVGIAVERSIEMVV 577
>gnl|CDD|185676 cd00807, GlnRS_core, catalytic core domain of glutaminyl-tRNA
synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic
core domain. These enzymes attach Gln to the appropriate
tRNA. Like other class I tRNA synthetases, they
aminoacylate the 2'-OH of the nucleotide at the 3' end
of the tRNA. The core domain is based on the Rossman
fold and is responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate. GlnRS contains
the characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 238
Score = 29.5 bits (67), Expect = 1.7
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 180 EKLREERPAAIENCVATLGFSLGEITALTFSGVFD--YETALELIK 223
EK EE +I+ V LG ++T S FD YE A +LIK
Sbjct: 46 EKEEEEYVDSIKEDVKWLGIKPYKVTYA--SDYFDQLYEYAEQLIK 89
>gnl|CDD|215537 PLN02993, PLN02993, lupeol synthase.
Length = 763
Score = 29.1 bits (65), Expect = 2.8
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 246 GPDSQLNLAMKRAKEWCVDRG 266
GP+ A KRA++W +D G
Sbjct: 192 GPNGGRENACKRARQWILDHG 212
>gnl|CDD|165780 PLN00215, PLN00215, predicted protein; Provisional.
Length = 110
Score = 27.5 bits (60), Expect = 3.3
Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 98 SLRPKTDPRDTSIIMFPGQGTQFV---GMGGDLIKTLPMA 134
SL P R ++ M PGQG Q+V G D LPMA
Sbjct: 43 SLPPPMSKRRSAAKMIPGQGGQWVLRRGTSRDCKPDLPMA 82
>gnl|CDD|143503 cd06830, PLPDE_III_ADC, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzyme Arginine Decarboxylase. This
subfamily includes plants and biosynthetic prokaryotic
arginine decarboxylases (ADC, EC 4.1.1.19). ADC is
involved in the biosynthesis of putrescine, which is the
precursor of aliphatic polyamines in many organisms. It
catalyzes the decarboxylation of L-arginine to agmatine,
which is then hydrolyzed to putrescine by agmatinase.
ADC is homologous to eukaryotic ornithine decarboxylase
(ODC) and diaminopimelate decarboxylase (DapDC), which
are fold type III PLP-dependent enzymes that contain an
N-terminal PLP-binding TIM-barrel domain and a
C-terminal beta-sandwich domain, similar to bacterial
alanine racemases. Homodimer formation and the presence
of both PLP and Mg2+ cofactors may be required for
catalytic activity. Prokaryotic ADCs (biodegradative),
which are fold type I PLP-dependent enzymes, are not
included in this family.
Length = 409
Score = 28.3 bits (64), Expect = 4.6
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 241 ASVMYGPDSQLNLAMKRAKEWCVDRGIPEPELSSISGR 278
+S Y + N +K KE C + G+P P + + SGR
Sbjct: 247 SSFNYSLEEYANDIVKTVKEICDEAGVPHPTIVTESGR 284
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
0.316 0.132 0.382
Gapped
Lambda K H
0.267 0.0893 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,603,338
Number of extensions: 1250817
Number of successful extensions: 1049
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1036
Number of HSP's successfully gapped: 16
Length of query: 278
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 182
Effective length of database: 6,679,618
Effective search space: 1215690476
Effective search space used: 1215690476
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (25.8 bits)