RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13307
(286 letters)
>gnl|CDD|182670 PRK10715, flk, flagella biosynthesis regulator; Provisional.
Length = 335
Score = 31.2 bits (71), Expect = 0.55
Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 7/40 (17%)
Query: 230 QGFKDGIR--F---TLSMLSPSNIKQKINEMQ--QMSIPQ 262
Q D IR F LS LSP +KQ + +Q Q+SIPQ
Sbjct: 112 QAVSDFIRQQFGQTVLSQLSPEQLKQVLTLLQNGQLSIPQ 151
>gnl|CDD|224840 COG1929, COG1929, Glycerate kinase [Carbohydrate transport and
metabolism].
Length = 378
Score = 31.1 bits (71), Expect = 0.71
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 158 YSIVTEGGDKEKLEAFVNFCED---AIFEMQHASGLMAV 193
++ G EK+EAF D A+ EM ASGL V
Sbjct: 61 VTLEVTGPLGEKVEAFYGLTGDGKTAVIEMAAASGLHLV 99
>gnl|CDD|233715 TIGR02086, IPMI_arch, 3-isopropylmalate dehydratase, large subunit.
This subfamily is a subset of the larger HacA family
(Homoaconitate hydratase family, TIGR01343) and is most
closely related to the 3-isopropylmalate dehydratase,
large subunits which form TIGR00170. This subfamily
includes the members of TIGR01343 which are gene
clustered with other genes of leucine biosynthesis. The
rest of the subfamily includes mainly archaeal species
which exhibit two hits to this model. In these cases it
is possible that one or the other of the hits does not
have a 3-isopropylmalate dehydratase activity but rather
one of the other related aconitase-like activities.
Length = 412
Score = 30.1 bits (68), Expect = 1.2
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 10/84 (11%)
Query: 191 MAVEEGGGAGSGKARKQAYNYLSVDGEEEKNINPIRRGWQGFKDGIRFTLSML------- 243
MAVE G AG ++ Y YL E I G + D I LS L
Sbjct: 211 MAVEAGAKAGIVVPDEETYEYLKKRRGYEFRILRPDPG-AKYDDEIEIDLSDLEPLVAVP 269
Query: 244 -SPSNIKQKINEMQQMSIPQLVVG 266
S N++ +++++ I Q+ +G
Sbjct: 270 HSVDNVR-PVSDVEGTEIDQVFIG 292
>gnl|CDD|222407 pfam13833, EF_hand_6, EF-hand domain pair.
Length = 53
Score = 26.7 bits (60), Expect = 2.7
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 45 EDIEFMLACCETNHDGKIDYVGFTDRF 71
E+++ + +T+ DGKI + F
Sbjct: 24 EEVDILFREFDTDGDGKISFEEFCVLL 50
>gnl|CDD|183940 PRK13276, PRK13276, cell wall biosynthesis protein ScdA;
Provisional.
Length = 224
Score = 28.2 bits (63), Expect = 4.1
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 62 IDYVGFTDRFHEPAKEIGFNLAVLLTNLSE-HMPNEPRLARFLET 105
I Y+ +HEP +E NL +T LS+ H PN P L ET
Sbjct: 79 IQYI--QSAYHEPLREEFKNLTPYVTKLSKVHGPNHPYLVELKET 121
>gnl|CDD|204446 pfam10322, 7TM_GPCR_Sru, Serpentine type 7TM GPCR chemoreceptor
Sru. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Sru is a member of the
Srg superfamily of chemoreceptors. Chemoperception is
one of the central senses of soil nematodes like C.
elegans which are otherwise 'blind' and 'deaf'.
Length = 307
Score = 28.3 bits (64), Expect = 4.3
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 266 GFFKLFFYAFYYSNYSVYL 284
+ KL F YY NY+ L
Sbjct: 101 HYLKLLFLFTYYFNYTSML 119
>gnl|CDD|241056 cd12612, RRM2_SECp43, RNA recognition motif 2 in tRNA
selenocysteine-associated protein 1 (SECp43). This
subgroup corresponds to the RRM2 of SECp43, an
RNA-binding protein associated specifically with
eukaryotic selenocysteine tRNA [tRNA(Sec)]. It may play
an adaptor role in the mechanism of selenocysteine
insertion. SECp43 is located primarily in the nucleus
and contains two N-terminal RNA recognition motifs
(RRMs), also termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), and a C-terminal
polar/acidic region. .
Length = 82
Score = 26.5 bits (59), Expect = 4.6
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 160 IVTEGGDKEKLEAFVNFCE-----DAIFEMQHASGL 190
+V + + FV F + A+ EMQ ASGL
Sbjct: 34 VVLDQNGNSRGYGFVRFSDESEQKRALTEMQGASGL 69
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 27.5 bits (62), Expect = 7.8
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 15/75 (20%)
Query: 80 FNLAVLLTNLSEHMPNEPRLARFLETASSVLNYFHPFLGRIEILGGSKRI---------- 129
+LAV++TN + ++ L ++ + R+E KR
Sbjct: 151 HDLAVVITN---QVYSDIDSDGLRPLGGHTLEHWSKTILRLEKFRNGKRRATLEKHRSRP 207
Query: 130 --ERVYFEIKESNIE 142
E F I + IE
Sbjct: 208 EGESAEFRITDRGIE 222
>gnl|CDD|234573 PRK00013, groEL, chaperonin GroEL; Reviewed.
Length = 542
Score = 27.8 bits (63), Expect = 8.1
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 9/54 (16%)
Query: 178 EDAIFEMQHASGLMAVEEGGGAGSGKARKQAYNYLS----VDGEEEKNINPIRR 227
EDA+ HA+ AVEEG G G A +A L ++G+E IN + R
Sbjct: 396 EDAL----HATR-AAVEEGIVPGGGVALLRAAPALEALKGLNGDEATGINIVLR 444
>gnl|CDD|223049 PHA03334, PHA03334, putative DNA polymerase catalytic subunit;
Provisional.
Length = 1545
Score = 27.5 bits (61), Expect = 10.0
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 79 GFNLAVLLTNLSEHMPNEPRLARFLETASSVLNYF 113
GF A L+ + P EP RF +S LN++
Sbjct: 701 GFGKATLMYTILRTKPEEPSWRRFTTYTTSSLNHY 735
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 0.140 0.419
Gapped
Lambda K H
0.267 0.0827 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,227,448
Number of extensions: 1496957
Number of successful extensions: 1467
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1467
Number of HSP's successfully gapped: 25
Length of query: 286
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 190
Effective length of database: 6,679,618
Effective search space: 1269127420
Effective search space used: 1269127420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (25.9 bits)