RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1647
(111 letters)
>gnl|CDD|216332 pfam01151, ELO, GNS1/SUR4 family. Members of this family are
involved in long chain fatty acid elongation systems
that produce the 26-carbon precursors for ceramide and
sphingolipid synthesis. Predicted to be integral
membrane proteins, in eukaryotes they are probably
located on the endoplasmic reticulum. Yeast ELO3 affects
plasma membrane H+-ATPase activity, and may act on a
glucose-signaling pathway that controls the expression
of several genes that are transcriptionally regulated by
glucose such as PMA1.
Length = 244
Score = 93.8 bits (234), Expect = 6e-25
Identities = 45/116 (38%), Positives = 61/116 (52%), Gaps = 6/116 (5%)
Query: 1 MVITTWAYLKFIKGEQTLFLGAINCFVHVAMYSYYFLSAFGPRVQKYLWWKNYITMLQII 60
M++ +W LK+ G F+ +N FVHV MY YYFL+A G R +WWK YIT LQII
Sbjct: 127 MLLYSWLGLKYGPGGHFWFIALLNSFVHVIMYFYYFLAALGAR-GLPVWWKKYITQLQII 185
Query: 61 QFILVLLQHVGLIVLDCKVD-----LKISYFIVGNAILFILLFGNFYYKTYIKKRK 111
QF+L L + K K + + ++ LF NFY K+Y K +K
Sbjct: 186 QFVLGLAHVGYALYNYTKGGCGGPFPKAVRLGLVYYVSYLFLFLNFYIKSYKKPKK 241
>gnl|CDD|140278 PTZ00251, PTZ00251, fatty acid elongase; Provisional.
Length = 272
Score = 34.4 bits (79), Expect = 0.006
Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 6 WAYLKFIKGEQTLF-LGAINCFVHVAMYSYYFLS--AFGPRVQKYLWWKNYITMLQIIQF 62
+A++ + +G A+N FVH MY Y+ LS F V+ + YIT+LQI Q
Sbjct: 153 YAWMSYQQGSSIWICAAAMNYFVHSIMYFYFALSEAGFKKLVKPF---AMYITLLQITQM 209
Query: 63 ILVLLQHVGLIV 74
+ L +IV
Sbjct: 210 VGGLFVSGYVIV 221
>gnl|CDD|227195 COG4858, COG4858, Uncharacterized membrane-bound protein conserved
in bacteria [Function unknown].
Length = 226
Score = 27.5 bits (61), Expect = 1.2
Identities = 17/95 (17%), Positives = 31/95 (32%), Gaps = 8/95 (8%)
Query: 17 TLFLGAINCFVHVAMYSYYFLSAFGPRVQKYLWWKNYITMLQIIQFILVLLQHVGLIVLD 76
L + F MY YY Q+ WK + + + + ++ +
Sbjct: 130 LLLTAVVGGFAMYIMY-YYAYRMRADNSQRPGTWKYLLVAVLSMLLWIAVMIATVFLPTS 188
Query: 77 CKVDLKISYFIVGNAILFILLFGNFYYKTYIKKRK 111
L + A++ L F Y+KK+K
Sbjct: 189 LNPQLPPIALTIIGAVILALRF-------YLKKKK 216
>gnl|CDD|215377 PLN02700, PLN02700, homoserine dehydrogenase family protein.
Length = 377
Score = 27.4 bits (61), Expect = 1.4
Identities = 12/47 (25%), Positives = 21/47 (44%)
Query: 37 LSAFGPRVQKYLWWKNYITMLQIIQFILVLLQHVGLIVLDCKVDLKI 83
LSA G + N ++I +L + GL+V+DC ++
Sbjct: 76 LSALGALAGGCQVFNNSELSRKVIDIATLLGKSTGLVVVDCSASMET 122
>gnl|CDD|153108 cd01049, RNRR2, Ribonucleotide Reductase, R2/beta subunit,
ferritin-like diiron-binding domain. Ribonucleotide
Reductase, R2/beta subunit (RNRR2) is a member of a
broad superfamily of ferritin-like diiron-carboxylate
proteins. The RNR protein catalyzes the conversion of
ribonucleotides to deoxyribonucleotides and is found in
all eukaryotes, many prokaryotes, several viruses, and
few archaea. The catalytically active form of RNR is a
proposed alpha2-beta2 tetramer. The homodimeric alpha
subunit (R1) contains the active site and redox active
cysteines as well as the allosteric binding sites. The
beta subunit (R2) contains a diiron cluster that, in its
reduced state, reacts with dioxygen to form a stable
tyrosyl radical and a diiron(III) cluster. This
essential tyrosyl radical is proposed to generate a
thiyl radical, located on a cysteine residue in the R1
active site that initiates ribonucleotide reduction. The
beta subunit is composed of 10-13 helices, the 8 longest
helices form an alpha-helical bundle; some have 2
addition beta strands. Yeast is unique in that it
assembles both homodimers and heterodimers of RNRR2. The
yeast heterodimer, Y2Y4, contains R2 (Y2) and a R2
homolog (Y4) that lacks the diiron center and is
proposed to only assist in cofactor assembly, and
perhaps stabilize R1 (Y1) in its active conformation.
Length = 288
Score = 27.2 bits (61), Expect = 1.7
Identities = 16/88 (18%), Positives = 30/88 (34%), Gaps = 8/88 (9%)
Query: 27 VHVAMYSYYFLSAFGPRVQKYL--WWKNYITMLQIIQFILVLLQHVGLIVLDCKVDLKIS 84
+H YSY + + L + + + +IL + LD +
Sbjct: 92 IHSESYSYILDTLGKDEERDELFEAIETDPALKKKADWILRWYDN-----LDDNTKESFA 146
Query: 85 YFIVGNAIL-FILLFGNFYYKTYIKKRK 111
+V AIL I + F ++ +R
Sbjct: 147 ERLVAFAILEGIFFYSGFAAIFWLARRG 174
>gnl|CDD|221263 pfam11847, DUF3367, Domain of unknown function (DUF3367). This
domain is functionally uncharacterized. This domain is
found in bacteria and archaea. This presumed domain is
typically between 667 to 694 amino acids in length.
Length = 677
Score = 27.4 bits (61), Expect = 1.9
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 62 FILVLLQHVGLIVLDCKVDL 81
F+L Q G I D K+DL
Sbjct: 4 FLLAFAQSPGRIAADTKLDL 23
>gnl|CDD|183737 PRK12773, flhB, flagellar biosynthesis protein FlhB; Reviewed.
Length = 646
Score = 26.9 bits (59), Expect = 2.4
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 24 NCFVHVAMYSYYFLSAFGPRVQKYLWWKNY 53
+ FV + +Y FG R K+++WK Y
Sbjct: 44 DSFVKSVLDVFYRFMLFGKRFGKFIFWKQY 73
>gnl|CDD|236591 PRK09614, nrdF, ribonucleotide-diphosphate reductase subunit beta;
Reviewed.
Length = 324
Score = 26.3 bits (59), Expect = 3.3
Identities = 18/83 (21%), Positives = 26/83 (31%), Gaps = 17/83 (20%)
Query: 27 VHVAMYSYYFLSAFGPRVQK--YLWWKNYITMLQIIQFILVLLQHVGLIVLDCKVDLK-- 82
VH YSY F + P + W + + + I D LK
Sbjct: 103 VHAKSYSYIFSTLCSPEEIDEAFEWAEENPYLQKKADII-----------QDFYEPLKKK 151
Query: 83 -ISYFIVGNAIL-FILLFGNFYY 103
+ V + L L + FYY
Sbjct: 152 ILRKAAVASVFLEGFLFYSGFYY 174
>gnl|CDD|131664 TIGR02615, spoVE, stage V sporulation protein E. This model
represents an exception within the members of the FtsW
model TIGR02614. This exception occurs only in
endospore-forming genera such as Bacillus, Geobacillus,
and Oceanobacillus. Like FtsW, members are found in a
peptidoglycan operon context, but in these genera they
part of a larger set of paralogs (not just the pair
FtsW and RodA) and are required specifically for
sporulation, not for viability [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan, Cellular processes, Sporulation and
germination].
Length = 354
Score = 25.1 bits (55), Expect = 9.2
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 47 YLWWKNYITMLQIIQFILVLL 67
Y WK + ML +I F+L+LL
Sbjct: 60 YHTWKRWAKMLMVICFVLLLL 80
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
0.336 0.149 0.481
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,834,777
Number of extensions: 521499
Number of successful extensions: 1013
Number of sequences better than 10.0: 1
Number of HSP's gapped: 996
Number of HSP's successfully gapped: 78
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 53 (24.2 bits)