RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10187
(78 letters)
>gnl|CDD|178174 PLN02560, PLN02560, enoyl-CoA reductase.
Length = 308
Score = 106 bits (266), Expect = 8e-30
Identities = 39/70 (55%), Positives = 51/70 (72%), Gaps = 2/70 (2%)
Query: 3 SLAALCYIVHYTKRVLETLFVHRFSHATMPIMNLFKNCGYYWGFTAYVAYHVNHPLFSPP 62
++ C+ HY KR+LET FVHRFSHAT P+ N+F+NC YYW F AY+AY VNHPL++P
Sbjct: 132 AMYYWCF--HYAKRILETFFVHRFSHATSPLFNVFRNCAYYWTFGAYIAYFVNHPLYTPV 189
Query: 63 NFVQVFVGLA 72
+ Q+ VG
Sbjct: 190 SETQMKVGFG 199
>gnl|CDD|234909 PRK01146, PRK01146, DNA-directed RNA polymerase subunit L;
Provisional.
Length = 85
Score = 28.7 bits (65), Expect = 0.12
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 49 YVAYHVNHPLFSPPNFV 65
+Y ++HPL S P
Sbjct: 40 AASYDIDHPLISNPVLK 56
>gnl|CDD|181154 PRK07869, PRK07869, amidase; Provisional.
Length = 468
Score = 27.3 bits (61), Expect = 0.75
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 11 VHYTKRVLETLFVHRFSHATMPIMNLFK-NCGYYWGFTAYVAYHVNHPLFSP 61
V T R+LE L HR +P+ F + YWGF A+ F P
Sbjct: 279 VLATARLLEELG-HRVEPVDLPVPASFVDDFLLYWGFLAFALVRGGRRTFGP 329
>gnl|CDD|132903 cd06927, RNAP_L, L subunit of Archaeal RNA polymerase. The
archaeal L subunit of RNA polymerase (RNAP) is involved
in the assembly of RNAP subunits. RNAP is a large
multi-subunit complex responsible for the synthesis of
RNA. It is the principal enzyme of the transcription
process, and is a final target in many regulatory
pathways that control gene expression in all living
cells. A single distinct RNAP complex is found in
archaea, which may be responsible for the synthesis of
all RNAs. The archaeal RNAP harbors homologues of all
eukaryotic RNAP II subunits with two exceptions (RPB8
and RPB9). The 12 archaeal subunits are designated by
letters and can be divided into three functional groups
that are engaged in: (I) catalysis (A'/A", B'/B" or B);
(II) assembly (L, N, D and P); and (III) auxiliary
functions (F, E, H and K). The assembly of the two
largest archaeal RNAP subunits that provide most of the
enzyme's catalytic functions depends on the presence of
the archaeal D/L heterodimer.
Length = 83
Score = 26.0 bits (58), Expect = 1.2
Identities = 6/17 (35%), Positives = 8/17 (47%)
Query: 49 YVAYHVNHPLFSPPNFV 65
+Y + HPL S P
Sbjct: 38 VASYDIEHPLLSNPVLK 54
>gnl|CDD|233383 TIGR01373, soxB, sarcosine oxidase, beta subunit family,
heterotetrameric form. This model describes the beta
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason. Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 407
Score = 25.5 bits (56), Expect = 2.7
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 29 ATMPIMNLFKNCGY-YWGFTA 48
P+ NL+ NCG+ GF A
Sbjct: 350 GKTPLPNLYLNCGWGTGGFKA 370
>gnl|CDD|220536 pfam10040, DUF2276, Uncharacterized conserved protein (DUF2276).
This domain, found in various hypothetical bacterial
proteins, has no known function.
Length = 118
Score = 24.1 bits (53), Expect = 7.7
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 45 GFTAYVAYHVNHPLFSPPNFVQVFVGLAAFAEFC 78
GF +V Y + +++F+ L FAE+
Sbjct: 75 GFVGWVTYEI----KGDKELLELFLALLRFAEYS 104
>gnl|CDD|233021 TIGR00555, panK_eukar, pantothenate kinase,
eukaryotic/staphyloccocal type. This model describes a
eukaryotic form of pantothenate kinase, characterized
from the fungus Aspergillus nidulans and with similar
forms known in several other eukaryotes. It also
includes forms from several Gram-positive bacteria
suggested to have originated from the eukaryotic form by
lateral transfer. It differs in a number of biochemical
properties (such as inhibition by acetyl-CoA) from most
bacterial CoaA and lacks sequence similarity. This
enzyme is the key regulatory step in the biosynthesis of
coenzyme A (CoA) [Biosynthesis of cofactors, prosthetic
groups, and carriers, Pantothenate and coenzyme A].
Length = 296
Score = 24.3 bits (53), Expect = 9.1
Identities = 9/47 (19%), Positives = 18/47 (38%), Gaps = 3/47 (6%)
Query: 3 SLAALCYIVHYTKRVLETLFVHRFSHATMPIMNLFKNCGYYWGFTAY 49
+A LC + + R++ F+ F +M + +W A
Sbjct: 237 QIAYLCALRYNIDRIV---FIGSFLRNNQLLMKVLSYATNFWSKKAL 280
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
0.335 0.143 0.489
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,043,583
Number of extensions: 305270
Number of successful extensions: 477
Number of sequences better than 10.0: 1
Number of HSP's gapped: 477
Number of HSP's successfully gapped: 14
Length of query: 78
Length of database: 10,937,602
Length adjustment: 47
Effective length of query: 31
Effective length of database: 8,852,964
Effective search space: 274441884
Effective search space used: 274441884
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 (24.0 bits)