RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14514
(91 letters)
>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel. This family
contains the cation channel region of PKD1 and PKD2
proteins.
Length = 423
Score = 63.9 bits (156), Expect = 1e-13
Identities = 25/67 (37%), Positives = 38/67 (56%)
Query: 25 WDSDYYTGQVGSYPYSGFYQDLSANHNDFLAQLDMLRKGGWITRATRVVFIDFSMYNANV 84
++ G + SYP G+ L + + L +L L+ W+ R TR VF++F++YNAN
Sbjct: 109 LMGAWHWGHLASYPSGGYVVLLPLSREESLKRLAYLQDHNWLDRRTRAVFVEFTLYNANT 168
Query: 85 NLFCFVK 91
NLFC V
Sbjct: 169 NLFCVVT 175
>gnl|CDD|238789 cd01531, Acr2p, Eukaryotic arsenate resistance proteins are
members of the Rhodanese Homology Domain superfamily.
Included in this CD is the Saccharomyces cerevisiae
arsenate reductase protein, Acr2p, and other yeast and
plant homologs.
Length = 113
Score = 27.8 bits (62), Expect = 0.47
Identities = 22/74 (29%), Positives = 31/74 (41%), Gaps = 10/74 (13%)
Query: 2 FLVQTVLKGIYEENLPVFEGSSVWDSDYYTGQV-GSYPYSGFYQDLSANHNDFLAQLDML 60
++ LKG P F+ V D DY G + GS+ Y S F AQL+ L
Sbjct: 3 YISPAQLKGWIRNGRPPFQVVDVRDEDYAGGHIKGSWHYP------STR---FKAQLNQL 53
Query: 61 RKGGWITRATRVVF 74
+ ++ VVF
Sbjct: 54 VQLLSGSKKDTVVF 67
>gnl|CDD|237612 PRK14108, PRK14108, bifunctional glutamine-synthetase
adenylyltransferase/deadenyltransferase; Provisional.
Length = 986
Score = 26.5 bits (59), Expect = 2.1
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 54 LAQLDMLRKGGWITRATR 71
L L L + GWIT R
Sbjct: 382 LEALAELAERGWITAQAR 399
>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein;
Provisional.
Length = 433
Score = 26.2 bits (59), Expect = 2.7
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 51 NDFLAQLDMLRKGG 64
DFL QL ++K G
Sbjct: 331 EDFLEQLQQMKKMG 344
>gnl|CDD|221565 pfam12413, DLL_N, Homeobox protein distal-less-like N terminal.
This domain family is found in eukaryotes, and is
approximately 80 amino acids in length. The family is
found in association with pfam00046. This family is the
N terminal of a homeobox protein involved in embryonic
development and adult neural regeneration.
Length = 84
Score = 25.5 bits (56), Expect = 2.8
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 16 LPVFEGSSVWDSDYYTGQVGSYPYSGFYQ 44
LP S+ DS YY+ Q G Y G+ Q
Sbjct: 6 LPE---STATDSGYYSPQ-GHNGYHGYCQ 30
>gnl|CDD|224015 COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase
[General function prediction only].
Length = 297
Score = 26.1 bits (58), Expect = 3.0
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 13/55 (23%)
Query: 34 VGSYPYSGF--YQDLSANHNDFLAQLDMLRKGGWITRA-------TRVVFIDFSM 79
VG Y +SG + S +DFLAQL W A TRVV + +
Sbjct: 112 VGYYGHSGDRVVTEESPPGDDFLAQLCQD----WEEEALQAQQLGTRVVLLRTGV 162
>gnl|CDD|235089 PRK02946, aceK, bifunctional isocitrate dehydrogenase
kinase/phosphatase protein; Validated.
Length = 575
Score = 26.0 bits (58), Expect = 3.0
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 58 DMLRKGGWITRATRVVFIDF 77
DML K +TR RVVF D+
Sbjct: 458 DMLFKNFGVTRHGRVVFYDY 477
>gnl|CDD|226945 COG4579, COG4579, Isocitrate dehydrogenase kinase/phosphatase
[Signal transduction mechanisms].
Length = 578
Score = 25.9 bits (57), Expect = 3.1
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 58 DMLRKGGWITRATRVVFIDF 77
DML K +TR RVVF D+
Sbjct: 457 DMLFKNFGVTRHGRVVFYDY 476
>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery
of selenocysteinyl-tRNA to the ribosome. SelB is an
elongation factor needed for the co-translational
incorporation of selenocysteine. Selenocysteine is coded
by a UGA stop codon in combination with a specific
downstream mRNA hairpin. In bacteria, the C-terminal
part of SelB recognizes this hairpin, while the
N-terminal part binds GTP and tRNA in analogy with
elongation factor Tu (EF-Tu). It specifically recognizes
the selenocysteine charged tRNAsec, which has a UCA
anticodon, in an EF-Tu like manner. This allows
insertion of selenocysteine at in-frame UGA stop codons.
In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a
stem-loop structure immediately downstream of the UGA
codon (the SECIS sequence). The absence of active SelB
prevents the participation of selenocysteyl-tRNAsec in
translation. Archaeal and animal mechanisms of
selenocysteine incorporation are more complex. Although
the SECIS elements have different secondary structures
and conserved elements between archaea and eukaryotes,
they do share a common feature. Unlike in E. coli, these
SECIS elements are located in the 3' UTRs. This group
contains bacterial SelBs, as well as, one from archaea.
Length = 170
Score = 25.6 bits (57), Expect = 3.2
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 4 VQTVLKGIYEENLPVFEGSSV 24
+ +L G + + P+F SSV
Sbjct: 128 ILELLAGTFLADAPIFPVSSV 148
>gnl|CDD|117702 pfam09147, DUF1933, Domain of unknown function (DUF1933).
Members of this family are predominantly found in
carbapenam synthetase, and are composed of two
antiparallel six-stranded beta-sheets that form a
sandwich, flanked on each side by two alpha-helices.
Their exact function has not, as yet, been determined.
Length = 201
Score = 26.0 bits (57), Expect = 3.2
Identities = 7/32 (21%), Positives = 14/32 (43%)
Query: 39 YSGFYQDLSANHNDFLAQLDMLRKGGWITRAT 70
+ G +D++ + F ++ML G T
Sbjct: 7 HGGIDKDINLLAHCFSGNIEMLSNGCLFTGRK 38
>gnl|CDD|232891 TIGR00238, TIGR00238, KamA family protein. This model represents
essentially the whole of E. coli YjeK and of some of its
apparent orthologs. YodO in Bacillus subtilis, a family
member which is longer protein by an additional 100
residues, is characterized as a lysine 2,3-aminomutase
with iron, sulphide and pyridoxal 5'-phosphate groups.
The homolog MJ0634 from M. jannaschii is preceded by
nearly 200 C-terminal residues. This family shows
similarity to molybdenum cofactor biosynthesis protein
MoaA and related proteins. Note that the E. coli homolog
was expressed in E. coli and purified and found not to
display display lysine 2,3-aminomutase activity. Active
site residues are found in 100 residue extension in B.
subtilis. Name changed to KamA family protein [Energy
metabolism, Electron transport].
Length = 331
Score = 25.6 bits (56), Expect = 3.7
Identities = 8/30 (26%), Positives = 10/30 (33%)
Query: 33 QVGSYPYSGFYQDLSANHNDFLAQLDMLRK 62
+VG PY Y D FL +
Sbjct: 279 KVGIIPYYLHYLDKVQGAKHFLVPDAEAAQ 308
>gnl|CDD|180584 PRK06481, PRK06481, fumarate reductase flavoprotein subunit;
Validated.
Length = 506
Score = 25.6 bits (56), Expect = 4.7
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 2 FLVQTVLKGIYEENLPVFEGSSVWDSDYYTGQV 34
+LV +LK + E +P+F + V G+V
Sbjct: 191 YLVDGLLKNVQERKIPLFVNADVTKITEKDGKV 223
>gnl|CDD|225248 COG2373, COG2373, Large extracellular alpha-helical protein
[General function prediction only].
Length = 1621
Score = 24.7 bits (54), Expect = 9.3
Identities = 18/77 (23%), Positives = 24/77 (31%), Gaps = 4/77 (5%)
Query: 7 VLKGIYEENL-PVFEGSSVWDSDYYTGQVGSYPYSGFYQDLSANHNDFL-AQLDMLRKGG 64
K I + VF GS +S P G L A K
Sbjct: 224 EFKNIEPDMGVLVFTGSVELNSALNEPGTTYIPL-GKILPGRKPGVYLLVALYGGGAKQD 282
Query: 65 WITRATRVVFI-DFSMY 80
+ RATR+ F+ D +
Sbjct: 283 YDARATRLFFVSDIGIV 299
>gnl|CDD|215235 PLN02426, PLN02426, cytochrome P450, family 94, subfamily C
protein.
Length = 502
Score = 24.7 bits (54), Expect = 9.3
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 53 FLAQLDMLRKGGWITRATRVVFIDFSM 79
F A+ D+L G ++ + TRV + ++M
Sbjct: 376 FAAEDDVLPDGTFVAKGTRVTYHPYAM 402
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
0.325 0.140 0.440
Gapped
Lambda K H
0.267 0.0662 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,636,407
Number of extensions: 369618
Number of successful extensions: 432
Number of sequences better than 10.0: 1
Number of HSP's gapped: 432
Number of HSP's successfully gapped: 24
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.3 bits)