RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2450
(254 letters)
>gnl|CDD|197727 smart00443, G_patch, glycine rich nucleic binding domain. A
predicted glycine rich nucleic binding domain found in
the splicing factor 45, SON DNA binding protein and
D-type Retrovirus- polyproteins.
Length = 47
Score = 60.3 bits (147), Expect = 1e-12
Identities = 24/47 (51%), Positives = 28/47 (59%)
Query: 180 IGADNVGNKLLQKMGWTQGQGLGKTNQGRTSIIEAEARISSAGLGTN 226
I N+G KLL+KMGW +GQGLGK QG I AE + GLG
Sbjct: 1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAV 47
>gnl|CDD|144978 pfam01585, G-patch, G-patch domain. This domain is found in a
number of RNA binding proteins, and is also found in
proteins that contain RNA binding domains. This suggests
that this domain may have an RNA binding function. This
domain has seven highly conserved glycines.
Length = 45
Score = 59.1 bits (144), Expect = 4e-12
Identities = 26/42 (61%), Positives = 28/42 (66%)
Query: 183 DNVGNKLLQKMGWTQGQGLGKTNQGRTSIIEAEARISSAGLG 224
N+G KLLQKMGW GQGLGK QG T IEA+ R GLG
Sbjct: 2 SNIGFKLLQKMGWKPGQGLGKNEQGITEPIEAKIRPDRKGLG 43
>gnl|CDD|221692 pfam12656, G-patch_2, DExH-box splicing factor binding site. Yeast
Spp2, a G-patch protein and spliceosome component,
interacts with the ATP-dependent DExH-box splicing
factor Prp2. As this interaction involves the G-patch
sequence in Spp2 and is required for the recruitment of
Prp2 to the spliceosome before the first catalytic step
of splicing, it is proposed that Spp2 might be an
accessory factor that confers spliceosome specificity on
Prp2.
Length = 79
Score = 45.8 bits (109), Expect = 6e-07
Identities = 18/46 (39%), Positives = 24/46 (52%)
Query: 183 DNVGNKLLQKMGWTQGQGLGKTNQGRTSIIEAEARISSAGLGTNAI 228
+ G LL+ MGW +GQG+GK N+G E + R GLG
Sbjct: 31 EEFGAALLRGMGWKEGQGIGKNNKGDVKPKEPKRRPGGLGLGAKPA 76
>gnl|CDD|206084 pfam13913, zf-C2HC_2, zinc-finger of a C2HC-type. This family
contains a number of divergent C2H2 type zinc fingers.
Length = 25
Score = 27.2 bits (61), Expect = 0.86
Identities = 9/17 (52%), Positives = 10/17 (58%), Gaps = 1/17 (5%)
Query: 88 CLICKRQFNSKDILKKH 104
C IC R+F D L KH
Sbjct: 5 CPICGRKFAP-DRLAKH 20
>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger. This family contains
a number of divergent C2H2 type zinc fingers.
Length = 24
Score = 26.8 bits (59), Expect = 1.1
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 88 CLICKRQFNSKDILKKH 104
C +C + F+SKD LK+H
Sbjct: 3 CPLCGKSFSSKDALKRH 19
>gnl|CDD|204841 pfam12171, zf-C2H2_jaz, Zinc-finger double-stranded RNA-binding.
This domain family is found in archaea and eukaryotes,
and is approximately 30 amino acids in length. The
mammalian members of this group occur multiple times
along the protein, joined by flexible linkers, and are
referred to as JAZ - dsRNA-binding ZF protein -
zinc-fingers. The JAZ proteins are expressed in all
tissues tested and localise in the nucleus, particularly
the nucleolus. JAZ preferentially binds to
double-stranded (ds) RNA or RNA/DNA hybrids rather than
DNA. In addition to binding double-stranded RNA, these
zinc-fingers are required for nucleolar localisation.
Length = 27
Score = 26.4 bits (59), Expect = 1.3
Identities = 9/25 (36%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 88 CLICKRQFNSKDILKKHTQLSELHK 112
C+ C + F S++ L+ H + S+ HK
Sbjct: 4 CVACDKYFKSENALENHLK-SKKHK 27
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a zinc-finger
domain with the CxxCx(12)Hx(6)H motif, found in multiple
copies in a wide range of proteins from plants to
metazoans. Some member proteins, particularly those from
plants, are annotated as being RNA-binding.
Length = 25
Score = 26.3 bits (59), Expect = 1.4
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 88 CLICKRQFNSKDILKKHTQ 106
C +C F S+ LK H +
Sbjct: 3 CELCNVTFTSESQLKSHLR 21
>gnl|CDD|185438 PTZ00087, PTZ00087, thrombosponding-related protein; Provisional.
Length = 340
Score = 29.5 bits (66), Expect = 1.7
Identities = 19/92 (20%), Positives = 39/92 (42%), Gaps = 15/92 (16%)
Query: 39 VCFSVVGNNREEKTKKSLVAAYESDE-------EPE--VQEETVSGEEKQQIDWDKLACL 89
+C+ + N + + + + + EPE V + G+ KQ+ D ++ L
Sbjct: 14 ICYQCISNLFKRQNTNYFLQLLQKNGNYKIVTLEPECTVGKGLQLGQAKQESDVNRKEFL 73
Query: 90 ------ICKRQFNSKDILKKHTQLSELHKSNL 115
I QF ++ L+ ++ E +KS+L
Sbjct: 74 LHNYVVIKNSQFTNEKTLELYSSKEENNKSHL 105
>gnl|CDD|219146 pfam06707, DUF1194, Protein of unknown function (DUF1194). This
family consists of several hypothetical Rhizobiales
specific proteins of around 270 residues in length. The
function of this family is unknown.
Length = 206
Score = 28.7 bits (65), Expect = 2.1
Identities = 17/50 (34%), Positives = 21/50 (42%), Gaps = 7/50 (14%)
Query: 200 GLGKTNQGRTSIIEAEARISSAGLGTN--AIGMTPAPGET-----YKDCV 242
G G NQG + A +AG+ N AI AP Y+DCV
Sbjct: 124 GDGPNNQGFPPVTAARDAAVAAGVTINGLAIMGAEAPTSDDLDAYYRDCV 173
>gnl|CDD|133126 cd06595, GH31_xylosidase_XylS-like, This family represents an
uncharacterized glycosyl hydrolase family 31 (GH31)
enzyme found in bacteria and eukaryotes that is related
to the XylS xylosidase of Sulfolobus solfataricus.
Alpha-xylosidases catalyze the release of an
alpha-xylose residue from the non-reducing end of
alpha-xyloside substrates. Enzymes of the GH31 family
possess a wide range of different hydrolytic activities
including alpha-glucosidase (glucoamylase and
sucrase-isomaltase), alpha-xylosidase,
6-alpha-glucosyltransferase,
3-alpha-isomaltosyltransferase and alpha-1,4-glucan
lyase. All GH31 enzymes cleave a terminal carbohydrate
moiety from a substrate that varies considerably in
size, depending on the enzyme, and may be either a
starch or a glycoprotein.
Length = 292
Score = 28.5 bits (64), Expect = 3.2
Identities = 14/59 (23%), Positives = 19/59 (32%), Gaps = 4/59 (6%)
Query: 107 LSELHKSNLKMWYTCRNLDPNDAVH-RAVQYRDRAKERRLKYGEPEVPPACKLKAKYSK 164
L +LH LK NL P D + QY + AK + K+
Sbjct: 80 LQDLHDRGLK---VTLNLHPADGIRAHEDQYPEMAKALGVDPATEGPILFDLTNPKFMD 135
>gnl|CDD|185627 PTZ00448, PTZ00448, hypothetical protein; Provisional.
Length = 373
Score = 28.5 bits (63), Expect = 3.4
Identities = 26/119 (21%), Positives = 45/119 (37%), Gaps = 9/119 (7%)
Query: 14 ISKVANNTEQAASESPSQSTQGSADVCFSVVGNNREEKTKKSLVAAYESDEEP------E 67
+ + N+ Q E+ +D+ F+ + N+ K L S +E
Sbjct: 237 VKTIDKNSNQDNVEAIQLELSNKSDILFNSITNDPRHIIDKKLEKTEVSIKENANKFVKP 296
Query: 68 VQEETVSGEEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKSNLKMWYTCRNLDP 126
+ E K++I + L C C Q + K+H + SE H N K R ++P
Sbjct: 297 IVSSLNIEESKREIKSNMLLCRKCNIQLMDHNAFKQHYR-SEWHIFNTKR--NARKMEP 352
>gnl|CDD|184482 PRK14059, PRK14059, hypothetical protein; Provisional.
Length = 251
Score = 28.0 bits (63), Expect = 4.2
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 132 RAVQYRDRAKERRLKYGEPEVPP 154
V+ A+++R G+ EVPP
Sbjct: 86 GGVRLSAAARQQRQARGQAEVPP 108
>gnl|CDD|236014 PRK07418, PRK07418, acetolactate synthase 3 catalytic subunit;
Reviewed.
Length = 616
Score = 28.1 bits (63), Expect = 5.1
Identities = 12/18 (66%), Positives = 12/18 (66%)
Query: 218 ISSAGLGTNAIGMTPAPG 235
ISSAGLGT GM A G
Sbjct: 428 ISSAGLGTMGFGMPAAMG 445
>gnl|CDD|223988 COG1060, ThiH, Thiamine biosynthesis enzyme ThiH and related
uncharacterized enzymes [Coenzyme metabolism / General
function prediction only].
Length = 370
Score = 28.0 bits (63), Expect = 5.7
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 4/53 (7%)
Query: 200 GLGKTNQGRTSIIEAEARISSAGLGTNAIGMTPAPGETYKDCVKKMMRARYSQ 252
K+ + I E R G+ T A + ET +D + + R Q
Sbjct: 193 PPKKSPEEWLEIHE---RAHRLGIPTTATMLL-GHVETREDRIDHLEHIRDLQ 241
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
0.310 0.125 0.359
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,088,937
Number of extensions: 1072339
Number of successful extensions: 728
Number of sequences better than 10.0: 1
Number of HSP's gapped: 728
Number of HSP's successfully gapped: 23
Length of query: 254
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 159
Effective length of database: 6,723,972
Effective search space: 1069111548
Effective search space used: 1069111548
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.0 bits)