RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5075
(91 letters)
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 43.5 bits (103), Expect = 2e-06
Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 43 IIMGLMTFQRFSGVSALIYYTVDIFRNAG-TRIAPSTASIIVGAVQVFS 90
+ + L FQ+F+G++A++YY+ IF NAG + SIIVGAV
Sbjct: 287 LGVVLQWFQQFTGINAIMYYSPTIFENAGVSTDHAFLVSIIVGAVNFAF 335
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 38.0 bits (89), Expect = 2e-04
Identities = 19/89 (21%), Positives = 37/89 (41%), Gaps = 6/89 (6%)
Query: 2 IQDGEDKRASSKEDFEGNCFVKLWEHWKKFELRSPTGKAIGIIMGLMTFQRFSGVSALIY 61
Q+ ++++ S + E W + + + + + L FQ+ +G++A+ Y
Sbjct: 220 DQEIQEEKDSLERSVEAEK-----ASWLELFRGKTVRQRLLMGVMLQIFQQLTGINAIFY 274
Query: 62 YTVDIFRNAGTRIAPSTASIIVGAVQVFS 90
Y+ IF G +IIVG V
Sbjct: 275 YSPTIFETLGLS-DSLLVTIIVGVVNFVF 302
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 35.4 bits (82), Expect = 0.001
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 3/49 (6%)
Query: 43 IIMGLM--TFQRFSGVSALIYYTVDIFRNAGTRI-APSTASIIVGAVQV 88
I++G+M FQ+F G++ ++YY +IF+ G +IIVG + +
Sbjct: 272 IVIGVMLSVFQQFVGINVVLYYAPEIFKTLGASTDIALLQTIIVGVINL 320
>gnl|CDD|188082 TIGR00766, TIGR00766, inner membrane protein YhjD. This family,
including YhjD in E. coli, is a conserved inner membrane
protein homologous YihY, which in turn was incorrectly
assigned to be ribonuclease BN. This, any suggestion
this family is similar to ribonucleases should be
removed [Transcription, Degradation of RNA].
Length = 263
Score = 28.7 bits (64), Expect = 0.35
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 33 LRSPTGKAIGIIMGLMTFQRF 53
LRSP+G A G ++GLM F F
Sbjct: 225 LRSPSGAAFGSVLGLMVFFYF 245
>gnl|CDD|170182 PRK09965, PRK09965, 3-phenylpropionate dioxygenase ferredoxin
subunit; Provisional.
Length = 106
Score = 27.4 bits (61), Expect = 0.66
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 10 ASSKEDF-EGNCFVKLWEHWKKFELRSPTGKAIG 42
AS E + E + V+ H F LR TGKA+
Sbjct: 47 ASLSEGYLEDDATVECPLHAASFCLR--TGKALC 78
>gnl|CDD|223836 COG0765, HisM, ABC-type amino acid transport system, permease
component [Amino acid transport and metabolism].
Length = 222
Score = 26.7 bits (60), Expect = 1.4
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 38 GKAIGIIMGLMTFQRFSGVSALIYYTVDIFRN 69
G +G+++ LM + L V+IFR
Sbjct: 36 GLVLGLLLALMRLSGNKPLRWLARAYVEIFRG 67
>gnl|CDD|241136 cd12692, RRM2_PTBPH3, RNA recognition motif 2 in plant
polypyrimidine tract-binding protein homolog 3
(PTBPH3). This subfamily corresponds to the RRM2 of
PTBPH3. Although its biological roles remain unclear,
PTBPH3 shows significant sequence similarity to
polypyrimidine tract binding protein (PTB) that is an
important negative regulator of alternative splicing in
mammalian cells and also functions at several other
aspects of mRNA metabolism, including mRNA
localization, stabilization, polyadenylation, and
translation. Like PTB, PTBPH3 contains four RNA
recognition motifs (RRM), also known as RBD (RNA
binding domain) or RNP (ribonucleoprotein domain). .
Length = 88
Score = 26.1 bits (57), Expect = 1.7
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 42 GIIMGLMTFQRFSGVSALIYYTV 64
G + ++TFQ+ +G+ ALI YT
Sbjct: 29 GFVEKIVTFQKSAGLQALIQYTS 51
>gnl|CDD|176022 cd08376, C2B_MCTP_PRT, C2 domain second repeat found in Multiple C2
domain and Transmembrane region Proteins (MCTP). MCTPs
are involved in Ca2+ signaling at the membrane. MCTP is
composed of a variable N-terminal sequence, three C2
domains, two transmembrane regions (TMRs), and a short
C-terminal sequence. It is one of four protein classes
that are anchored to membranes via a transmembrane
region; the others being synaptotagmins, extended
synaptotagmins, and ferlins. MCTPs are the only
membrane-bound C2 domain proteins that contain two
functional TMRs. MCTPs are unique in that they bind Ca2+
but not phospholipids. C2 domains fold into an 8-standed
beta-sandwich that can adopt 2 structural arrangements:
Type I and Type II, distinguished by a circular
permutation involving their N- and C-terminal beta
strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second C2
repeat, C2B, and has a type-II topology.
Length = 116
Score = 26.1 bits (58), Expect = 1.8
Identities = 10/44 (22%), Positives = 18/44 (40%), Gaps = 6/44 (13%)
Query: 7 DKRASSKEDFEGNCFVKLWEHWK------KFELRSPTGKAIGII 44
DK K++F G C + L + + EL G + ++
Sbjct: 69 DKDTGKKDEFIGRCEIDLSALPREQTHSLELELEDGEGSLLLLL 112
>gnl|CDD|180755 PRK06926, PRK06926, flagellar motor protein MotP; Reviewed.
Length = 271
Score = 25.8 bits (57), Expect = 3.4
Identities = 11/38 (28%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 29 KKFELRSPTGKAIGIIMGLMTFQRFSGVSALIYYTVDI 66
KKF+ +P G +GI + ++ SG+S + + +D+
Sbjct: 2 KKFDYLTPVGIFLGITIVVLGVISNSGLSGFLSF-IDL 38
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 25.0 bits (55), Expect = 6.1
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 9 RASSKEDFEG-NCFVKLWEHWKKFELRSPTGKAIGIIMGLMTFQRF 53
R+SSKEDF + F+ L E K L SP A + L+ + F
Sbjct: 198 RSSSKEDFTNLDRFITLKEEGK---LLSPEYVA-KALRNLLETEDF 239
>gnl|CDD|149827 pfam08886, GshA, Glutamate-cysteine ligase. This is a rare
family of glutamate--cysteine ligases, EC:6.3.2.2,
demonstrated first in Thiobacillus ferrooxidans and
present in a few other Proteobacteria. It is the first
of two enzymes for glutathione biosynthesis. It is also
called gamma-glutamylcysteine synthetase. The structure
of this family has been solved, and is similar to that
of human glutathione synthetase and very different to
gamma-glutamylcysteine synthetase from Escherichia
coli.
Length = 404
Score = 24.9 bits (55), Expect = 7.0
Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 4/27 (14%)
Query: 50 FQRFSGVSALIYYTVDIFRNAGTRIAP 76
+Q + Y +VD+ RNAG ++AP
Sbjct: 19 WQEHTPP---FYSSVDL-RNAGFKLAP 41
>gnl|CDD|218138 pfam04542, Sigma70_r2, Sigma-70 region 2. Region 2 of sigma-70
is the most conserved region of the entire protein. All
members of this class of sigma-factor contain region 2.
The high conservation is due to region 2 containing
both the -10 promoter recognition helix and the primary
core RNA polymerase binding determinant. The core
binding helix, interacts with the clamp domain of the
largest polymerase subunit, beta prime. The aromatic
residues of the recognition helix, found at the
C-terminus of this domain are though to mediate strand
separation, thereby allowing transcription initiation.
Length = 71
Score = 24.1 bits (53), Expect = 7.1
Identities = 8/44 (18%), Positives = 15/44 (34%), Gaps = 3/44 (6%)
Query: 8 KRASSKEDFEGNCFVKLWEHWKKFEL---RSPTGKAIGIIMGLM 48
+ ED F+ L ++F+ S + II +
Sbjct: 18 GDGADAEDLVQEGFLGLLRAVERFDPERGVSFSTWLYTIIRNAI 61
>gnl|CDD|214435 MTH00150, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 417
Score = 24.8 bits (55), Expect = 7.4
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 43 IIMGLMTFQRFSGVSALIYYT 63
+ +GLM F SG+ +L YT
Sbjct: 353 VPLGLMVF--LSGLYSLYLYT 371
>gnl|CDD|183567 PRK12515, PRK12515, RNA polymerase sigma factor; Provisional.
Length = 189
Score = 24.7 bits (54), Expect = 7.5
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 10 ASSKEDFEGNCFVKLWEHWKKFELRSPTGKAIGIIMGLMTFQRFSGVSAL 59
+ ED F+ +W +FE RS + L++ RF +SAL
Sbjct: 46 EQTAEDLVSEVFLDVWRQAGQFEGRS------QVSTWLLSIARFKALSAL 89
>gnl|CDD|236633 PRK09919, PRK09919, anti-adapter protein IraM; Provisional.
Length = 114
Score = 24.2 bits (53), Expect = 9.1
Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 53 FSGVSAL------IYYTVDIFRNAGTRIAPSTASIIV 83
FS +S+L ++Y DIF G+ I P + +++
Sbjct: 18 FSAISSLRNLKLILWYQADIFLPPGSIITPVKSGVLL 54
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 0.410
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,620,896
Number of extensions: 375829
Number of successful extensions: 344
Number of sequences better than 10.0: 1
Number of HSP's gapped: 344
Number of HSP's successfully gapped: 23
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
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: 53 (24.1 bits)