RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9036
(143 letters)
>gnl|CDD|233194 TIGR00930, 2a30, K-Cl cotransporter. [Transport and binding
proteins, Other].
Length = 953
Score = 127 bits (322), Expect = 4e-35
Identities = 50/94 (53%), Positives = 62/94 (65%), Gaps = 1/94 (1%)
Query: 6 RAIQRAPDGTSIADATGGAG-SNTHGVKLGWIVGVLIPCLLNIWGVMLFLRMAWVVGEAG 64
Q + DA G VK GW++GVL+PCLLNIWGV+LFLR++W+VG+AG
Sbjct: 50 NNGQGMKEHEEAEDAEGTKEKPPAGAVKFGWVMGVLVPCLLNIWGVILFLRLSWIVGQAG 109
Query: 65 IGHSLVIIGISYVVCIITTLSLSAITTNGEVKGG 98
IG SL+II + V IT LS+SAI TNG VKGG
Sbjct: 110 IGLSLLIILLCCCVTTITGLSMSAIATNGVVKGG 143
>gnl|CDD|215858 pfam00324, AA_permease, Amino acid permease.
Length = 473
Score = 51.6 bits (124), Expect = 2e-08
Identities = 24/61 (39%), Positives = 35/61 (57%)
Query: 38 GVLIPCLLNIWGVMLFLRMAWVVGEAGIGHSLVIIGISYVVCIITTLSLSAITTNGEVKG 97
VL+ L + G LF+ V+G+AG +L+ I+ VV +T LSL ++TNG V G
Sbjct: 1 HVLMIALGGVIGTGLFVGSGSVLGQAGPAGALLGYLIAGVVIFLTMLSLGEMSTNGPVAG 60
Query: 98 G 98
G
Sbjct: 61 G 61
>gnl|CDD|143601 cd07577, Ph0642_like, Pyrococcus horikoshii Ph0642 and related
proteins, members of the nitrilase superfamily (putative
class 13 nitrilases). Uncharacterized subgroup of the
nitrilase superfamily. This superfamily is comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. Pyrococcus horikoshii Ph0642 is a
hypothetical protein belonging to this subgroup. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13).
This subgroup was classified as belonging to class 13,
which represents proteins that at the time were
difficult to place in a distinct similarity group.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer.
Length = 259
Score = 29.2 bits (66), Expect = 0.71
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 88 AITTN---GEVKGGECMSYSQKSQIYINRGDVLS 118
IT N E +GGE + + KSQI +G+VL+
Sbjct: 187 TITANRIGTEERGGETLRFIGKSQITSPKGEVLA 220
>gnl|CDD|237426 PRK13558, PRK13558, bacterio-opsin activator; Provisional.
Length = 665
Score = 27.9 bits (62), Expect = 2.0
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 3 LSNRAIQRAPDGTSIADAT 21
L RA+ AP G +IADAT
Sbjct: 149 LKERALDEAPVGITIADAT 167
>gnl|CDD|187662 cd09761, A3DFK9-like_SDR_c, Clostridium thermocellum A3DFK9-like, a
putative carbohydrate or polyalcohol metabolizing SDR,
classical (c) SDRs. This subgroup includes a putative
carbohydrate or polyalcohol metabolizing SDR (A3DFK9)
from Clostridium thermocellum. Its members have a
TGXXXGXG classical-SDR glycine-rich NAD-binding motif,
and some have a canonical SDR active site tetrad (A3DFK9
lacks the upstream Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 26.0 bits (57), Expect = 6.9
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 1 DILSNRAIQRAPDGTSIADATGGAGSNTHGVKLGWIVGVLIPCLLNIW 48
+I S RA Q PD + A + GG + TH + + + + C+ W
Sbjct: 130 NIASTRAFQSEPDSEAYAASKGGLVALTHALAMSLGPDIRVNCISPGW 177
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
0.322 0.138 0.417
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,993,193
Number of extensions: 610648
Number of successful extensions: 595
Number of sequences better than 10.0: 1
Number of HSP's gapped: 592
Number of HSP's successfully gapped: 36
Length of query: 143
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 56
Effective length of database: 7,078,804
Effective search space: 396413024
Effective search space used: 396413024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.5 bits)