RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6071
(185 letters)
>gnl|CDD|220604 pfam10155, DUF2363, Uncharacterized conserved protein (DUF2363).
This is a region of 120 amino acids of a family of
proteins conserved from plants to humans. The function
is not known.
Length = 126
Score = 66.5 bits (163), Expect = 1e-14
Identities = 22/42 (52%), Positives = 31/42 (73%)
Query: 126 VENNPLIAIEVLLKLIQSNHITEYFSVLVNMEMSLHSMEVVN 167
+ENNP IAIE+L+KL S EY VL+ M++++ S+EVVN
Sbjct: 1 IENNPQIAIEILVKLANSPDFHEYLDVLIQMDVTVQSLEVVN 42
>gnl|CDD|178008 PLN02382, PLN02382, probable sucrose-phosphatase.
Length = 413
Score = 29.2 bits (66), Expect = 1.2
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 103 AELQHDSKLVYHIGLTPAKLPDLVENNPLI 132
AE +HDS LV+ G +P +L + PL+
Sbjct: 40 AEYRHDSLLVFSTGRSPTLYKELRKEKPLL 69
>gnl|CDD|107306 cd06311, PBP1_ABC_sugar_binding_like_3, Periplasmic sugar-binding
domain of uncharacterized ABC-type transport systems.
Periplasmic sugar-binding domain of uncharacterized
ABC-type transport systems that share homology with a
family of pentose/hexose sugar-binding proteins of the
type I periplasmic binding protein superfamily, which
consists of two domains connected by a three-stranded
hinge. The substrate specificity of this group is not
known, but it is predicted to be involved in the
transport of sugar-containing molecules and chemotaxis.
Length = 274
Score = 27.3 bits (61), Expect = 4.3
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 1 MSHSNFNEQTAYKVAEELLTK 21
++N+N A+ V ++LLTK
Sbjct: 162 RQYANWNRDDAFSVMQDLLTK 182
>gnl|CDD|132723 cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) of Eukaryotic RNA
polymerase III (RNAP III), C-terminal domain.
Eukaryotic RNA polymerase III (RNAP III) is a large
multi-subunit complex responsible for the synthesis of
tRNAs, 5SrRNA, Alu-RNA, U6 snRNA, among others. Rpc1 is
also known as C160 in yeast. Structure studies suggest
that different RNA polymerase complexes share a similar
crab-claw-shape structure. The C-terminal domain of
Rpb1, the largest subunit of RNAP II, makes up part of
the foot and jaw structures of RNAP II. The similarity
between this domain and the C-terminal domain of Rpb1,
its counterpart in RNAP II, suggests a similar
functional and structural role.
Length = 300
Score = 27.2 bits (61), Expect = 5.3
Identities = 20/68 (29%), Positives = 26/68 (38%), Gaps = 15/68 (22%)
Query: 125 LVENNPLIAI----EVLLKLIQSNHITEYFSVLVNMEMSLHSMEVVNSVLVN---MEMSL 177
LVE L A+ V+ SNHI E VL +E S ++N M
Sbjct: 166 LVEGYGLRAVMNTPGVIGTRTTSNHIMEVEKVL--------GIEAARSTIINEIQYTMKS 217
Query: 178 HSMEVVNR 185
H M + R
Sbjct: 218 HGMSIDPR 225
>gnl|CDD|234005 TIGR02774, rexB_recomb, ATP-dependent nuclease subunit B. DNA
repair is accomplished by several different systems in
prokaryotes. Recombinational repair of double-stranded
DNA breaks involves the RecBCD pathway in some lineages,
and AddAB (also called RecAB) in other. The AddA protein
is conserved between the firmicutes and the
alphaproteobacteria, while the partner protein is not.
The partner may be designated AddB, as in Bacillus and
in alphaproteobacteria, or RexB as in Streptococcus and
Lactococcus. Note, however, that RexB proteins lack an
N-terminal GxxGxGK[ST] ATP-binding motif found in
Bacillus subtilis and related species, and this
difference may be important; this model represents
specifically RexB proteins as found in Streptococcus and
Lactococcus [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1076
Score = 27.5 bits (61), Expect = 5.4
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 107 HDSKLVYHIGLTPAKLPDLVENNPLIAIEVLLKLIQSNHITEY 149
H + VY IGLT + P + +N+ L+ E L N TE
Sbjct: 556 HTAPFVYAIGLTQSNFPKISQNSSLLTDEERQNL---NDATEE 595
>gnl|CDD|224399 COG1482, ManA, Phosphomannose isomerase [Carbohydrate transport and
metabolism].
Length = 312
Score = 27.3 bits (61), Expect = 5.4
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 11/65 (16%)
Query: 101 LLAELQHDSKLVYHIGLTPAK--LPDLVEN---NPLIAIEVLLKLIQSNHI------TEY 149
L+ E+ +S Y + T + +L E I + + + E
Sbjct: 182 LVLEVMQNSDNTYRVYDTDRYDDIGELRELHLFKAKDVITLPTQPRKQGAELTYPVPNED 241
Query: 150 FSVLV 154
F++
Sbjct: 242 FALYK 246
>gnl|CDD|225350 COG2740, COG2740, Predicted nucleic-acid-binding protein implicated
in transcription termination [Transcription].
Length = 95
Score = 26.2 bits (58), Expect = 5.6
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 81 AKKLMTRAFKSALTLQQQQHLLAELQHDSK 110
KKL +RA K+ ++ L+ L
Sbjct: 61 KKKLFSRALKAKVSDSLYDELIQLLAELEP 90
>gnl|CDD|227836 COG5549, COG5549, Predicted Zn-dependent protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 26.4 bits (58), Expect = 8.8
Identities = 10/40 (25%), Positives = 13/40 (32%), Gaps = 1/40 (2%)
Query: 6 FNEQTAYKVAEELLTKTSGPGQLNHS-SPLVNQYYKPEFL 44
+ +A E L G G LNH + E L
Sbjct: 148 YGRARTALIAYEFLGHALGLGHLNHRGDIMYPPGELRENL 187
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
0.316 0.129 0.362
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,920,586
Number of extensions: 794723
Number of successful extensions: 697
Number of sequences better than 10.0: 1
Number of HSP's gapped: 697
Number of HSP's successfully gapped: 11
Length of query: 185
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 94
Effective length of database: 6,901,388
Effective search space: 648730472
Effective search space used: 648730472
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.3 bits)