RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1295
(137 letters)
>gnl|CDD|224277 COG1358, RPL8A, Ribosomal protein HS6-type (S12/L30/L7a)
[Translation, ribosomal structure and biogenesis].
Length = 116
Score = 110 bits (276), Expect = 3e-32
Identities = 47/115 (40%), Positives = 69/115 (60%), Gaps = 3/115 (2%)
Query: 18 KAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLH 77
A PLA L K LSL+ +A +L+KG NE TK + RG ++ +V+A D P E+V H
Sbjct: 2 YAKPLAPEMLEQKALSLLGKASRAGKLKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKH 61
Query: 78 LPLLCEDKNVPYVFVRSKQALGRACGV-SRPIIACSVTV--DEGSQLKPQIQAIQ 129
LP LCE+KNVPYV+V SK+ LG+A G R ++A + L +++ ++
Sbjct: 62 LPALCEEKNVPYVYVGSKKELGKAVGKEVRKVVAIVDKGFAKKLEDLVEKVEELK 116
>gnl|CDD|216387 pfam01248, Ribosomal_L7Ae, Ribosomal protein L7Ae/L30e/S12e/Gadd45
family. This family includes: Ribosomal L7A from
metazoa, Ribosomal L8-A and L8-B from fungi, 30S
ribosomal protein HS6 from archaebacteria, 40S ribosomal
protein S12 from eukaryotes, Ribosomal protein L30 from
eukaryotes and archaebacteria. Gadd45 and MyD118.
Length = 95
Score = 106 bits (268), Expect = 2e-31
Identities = 37/92 (40%), Positives = 58/92 (63%)
Query: 29 TKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP 88
+ ++++AL +L G E TK L RG ++ +++A D +P E V LP LC++KNVP
Sbjct: 1 DALKEVLKKALKTGKLVLGLKEVTKALRRGKAKLVIIAEDCDPEEKVKLLPALCKEKNVP 60
Query: 89 YVFVRSKQALGRACGVSRPIIACSVTVDEGSQ 120
YV+V SK+ LG ACG RP+ A ++ + S+
Sbjct: 61 YVYVPSKKELGEACGKPRPVSALAIKDNGDSK 92
>gnl|CDD|179766 PRK04175, rpl7ae, 50S ribosomal protein L7Ae; Validated.
Length = 122
Score = 103 bits (258), Expect = 2e-29
Identities = 45/109 (41%), Positives = 72/109 (66%), Gaps = 2/109 (1%)
Query: 27 LTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKN 86
L K L V++A + +++KG NE TK + RG+++ +V+A D +P EIV HLPLLCE+K
Sbjct: 14 LAEKALEAVEKARDTGKIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKK 73
Query: 87 VPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135
+PYV+V SK+ LG+A G+ A ++ VD G + K ++ I +++ L
Sbjct: 74 IPYVYVPSKKDLGKAAGLEVGAAAAAI-VDAG-KAKELVEDIVEKVNEL 120
>gnl|CDD|188367 TIGR03677, rpl7ae, 50S ribosomal protein L7Ae. This model
specifically identifies the archaeal version of the
large ribosomal complex L7 protein. The family is a
narrower version of the pfam01248 model which also
recognizes the L30 protein. Multifunctional RNA-binding
protein that recognizes the K-turn motif in ribosomal
RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts
with protein L15e.
Length = 117
Score = 102 bits (255), Expect = 4e-29
Identities = 43/109 (39%), Positives = 70/109 (64%), Gaps = 2/109 (1%)
Query: 27 LTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKN 86
L K L V++A +++KG NE TK + RG+++ +V+A D EP EIV HLP LCE+K
Sbjct: 10 LADKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKG 69
Query: 87 VPYVFVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135
+PY++V++K+ LG A G+ A ++ VD G + ++ I +++E L
Sbjct: 70 IPYIYVKTKEDLGAAAGLEVGAAAAAI-VDAGK-AEELLKEIVEKVEAL 116
>gnl|CDD|240382 PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-like; Provisional.
Length = 266
Score = 49.5 bits (118), Expect = 6e-08
Identities = 21/57 (36%), Positives = 33/57 (57%)
Query: 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100
L+ G N T + ++ +V+A D +P+E+V LP LC K VPY ++ K LG+
Sbjct: 133 LKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGK 189
>gnl|CDD|140249 PTZ00222, PTZ00222, 60S ribosomal protein L7a; Provisional.
Length = 263
Score = 48.5 bits (115), Expect = 1e-07
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 6/86 (6%)
Query: 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSR 106
G E T+ + + + +V+A + +P+E+VL +P LC +PY V+ LG A G R
Sbjct: 136 GLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIG--R 193
Query: 107 PIIAC----SVTVDEGSQLKPQIQAI 128
C V ++ + LK I+++
Sbjct: 194 KTATCVAITDVNAEDEAALKNLIRSV 219
>gnl|CDD|184174 PRK13602, PRK13602, putative ribosomal protein L7Ae-like;
Provisional.
Length = 82
Score = 41.7 bits (98), Expect = 4e-06
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 35 VQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94
V QA K + G + K L RG + +V+A DA+P + + L +K VP V S
Sbjct: 6 VSQA---KSIVIGTKQTVKALKRGSVKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDS 61
Query: 95 KQALGRACGV 104
+ LG+ACG+
Sbjct: 62 MKKLGKACGI 71
>gnl|CDD|184172 PRK13600, PRK13600, putative ribosomal protein L7Ae-like;
Provisional.
Length = 84
Score = 31.7 bits (72), Expect = 0.032
Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 39 LNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98
N + G E K L + +++A D E + ++ + KN+P F +SK AL
Sbjct: 9 FNKQHFVVGLKETLKALKKDQVTSLIIAEDVE-VYLMTRVLSQINQKNIPVSFFKSKHAL 67
Query: 99 GRACGVS 105
G+ G++
Sbjct: 68 GKHVGIN 74
>gnl|CDD|184173 PRK13601, PRK13601, putative L7Ae-like ribosomal protein;
Provisional.
Length = 82
Score = 31.5 bits (71), Expect = 0.039
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGV 104
GA + K + + +A DAE + + LCE+K++ V++ + + LG CG+
Sbjct: 12 GAKQTLKAITNCNVLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTMKELGVMCGI 68
>gnl|CDD|179205 PRK01018, PRK01018, 50S ribosomal protein L30e; Reviewed.
Length = 99
Score = 30.7 bits (70), Expect = 0.088
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 3/73 (4%)
Query: 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-YVFVRSKQALGRACGVS 105
G+ K + G ++ +++A++ P +I + + +P Y + S LG CG
Sbjct: 20 GSKRTIKAIKLGKAKLVIVASNC-PKDIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKP 78
Query: 106 RPIIACSVTVDEG 118
+ A ++ VD G
Sbjct: 79 FTVSALAI-VDPG 90
>gnl|CDD|224823 COG1911, RPL30, Ribosomal protein L30E [Translation, ribosomal
structure and biogenesis].
Length = 100
Score = 27.7 bits (62), Expect = 0.84
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-YVFVRSKQALGRACGVS 105
G+ K+L G ++ I++A++ P E+ + + ++P YV+ + LG CG
Sbjct: 23 GSKRTIKSLKLGKAKLIIIASNC-PKELKEDIEYYAKLSDIPVYVYEGTSVELGTVCG-- 79
Query: 106 RP-IIACSVTVDEGS 119
+P +A +DEG
Sbjct: 80 KPFRVAALAIIDEGD 94
>gnl|CDD|221025 pfam11202, DUF2983, Protein of unknown function (DUF2983). This
bacterial family of proteins has no known function.
Length = 353
Score = 27.9 bits (63), Expect = 1.7
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGV 104
EAT+ L R + VL D + + V HL LL ++K VP V A G+
Sbjct: 301 EATRVLLRRVPW-RVLVRDPDDPD-VAHLRLLAKEKGVPVEEVPDLPY--SAVGL 351
>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases. Arl4
(Arf-like 4) is highly expressed in testicular germ
cells, and is found in the nucleus and nucleolus. In
mice, Arl4 is developmentally expressed during
embryogenesis, and a role in somite formation and
central nervous system differentiation has been
proposed. Arl7 has been identified as the only Arf/Arl
protein to be induced by agonists of liver X-receptor
and retinoid X-receptor and by cholesterol loading in
human macrophages. Arl7 is proposed to play a role in
transport between a perinuclear compartment and the
plasma membrane, apparently linked to the ABCA1-mediated
cholesterol secretion pathway. Older literature suggests
that Arl6 is a part of the Arl4/Arl7 subfamily, but
analyses based on more recent sequence data place Arl6
in its own subfamily.
Length = 183
Score = 27.1 bits (60), Expect = 2.6
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 62 FIVLAADAEPLE---IVLH-LPLLCEDKNVPYVFVRSKQALGRACGVS 105
F+V + D E +E LH + E++ VP + + +KQ L A VS
Sbjct: 81 FVVDSVDVERMEEAKTELHKITKFSENQGVPVLVLANKQDLPNALPVS 128
>gnl|CDD|176451 cd08769, DAP_dppA_2, Peptidase M55, D-aminopeptidase
dipeptide-binding protein family. M55 Peptidase,
D-Aminopeptidase dipeptide-binding protein (dppA; DAP
dppA; EC 3.4.11.-) domain: Peptide transport systems are
found in many bacterial species and generally function
to accumulate intact peptides in the cell, where they
are hydrolyzed. The dipeptide-binding protein (dppA) of
Bacillus subtilis belongs to the dipeptide ABC transport
(dpp) operon expressed early during sporulation. It is a
binuclear zinc-dependent, D-specific aminopeptidase. The
biologically active enzyme is a homodecamer with active
sites buried in its channel. These
self-compartmentalizing proteases are characterized by a
SXDXEG motif. D-Ala-D-Ala and D-Ala-Gly-Gly are the
preferred substrates. Bacillus subtilis dppA is thought
to function as an adaptation to nutrient deficiency;
hydrolysis of its substrate releases D-Ala which can be
used subsequently as metabolic fuel. This family also
contains a number of uncharacterized putative
peptidases.
Length = 270
Score = 26.8 bits (60), Expect = 3.5
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 16/69 (23%)
Query: 46 KGANEATKTLNRGL-SEF----IVLAADAEPLEIVLHLPLLCEDKNVP-YVFVRSKQALG 99
K NE +N EF +++A D+E + V + P VFV +K++L
Sbjct: 131 KEMNETL--INAAYAGEFGVPVVLVAGDSELEKEVK--------EETPWAVFVPTKESLS 180
Query: 100 RACGVSRPI 108
R S +
Sbjct: 181 RYSAKSPSM 189
>gnl|CDD|235517 PRK05583, PRK05583, ribosomal protein L7Ae family protein;
Provisional.
Length = 104
Score = 25.8 bits (57), Expect = 4.6
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 82 CEDKNVPYVFVRSKQALGRACG 103
C N+PY+ SK+ LG A G
Sbjct: 55 CNKYNIPYIEGYSKEELGNAIG 76
>gnl|CDD|173621 PTZ00431, PTZ00431, pyrroline carboxylate reductase; Provisional.
Length = 260
Score = 26.5 bits (58), Expect = 4.8
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 7/43 (16%)
Query: 74 IVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVD 116
I H P KN P+V+++S + L + C II +V D
Sbjct: 33 IYYHTPS---KKNTPFVYLQSNEELAKTCD----IIVLAVKPD 68
>gnl|CDD|236077 PRK07714, PRK07714, hypothetical protein; Provisional.
Length = 100
Score = 25.5 bits (56), Expect = 5.4
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 8/89 (8%)
Query: 31 ILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV 90
L L +A +++ G K + G ++ ++L+ DA + + C NVP
Sbjct: 9 FLGLANRA---RKVISGEELVLKEVRSGKAKLVLLSEDAS-VNTTKKITDKCTYYNVPMR 64
Query: 91 FVRSKQALGRACGV-SRPIIACSVTVDEG 118
V ++Q LG A G R ++A +DEG
Sbjct: 65 KVENRQQLGHAIGKDERVVVA---VLDEG 90
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 25.9 bits (58), Expect = 8.5
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 48 ANEATKTLNRGLSEFIVLAADAEPLEIVL 76
AN A + + G+SE +VLAA ++ L
Sbjct: 631 ANLAPRKMKFGVSEGMVLAAGPGGGDLFL 659
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
0.319 0.134 0.372
Gapped
Lambda K H
0.267 0.0706 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,677,444
Number of extensions: 579002
Number of successful extensions: 622
Number of sequences better than 10.0: 1
Number of HSP's gapped: 620
Number of HSP's successfully gapped: 33
Length of query: 137
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 50
Effective length of database: 7,078,804
Effective search space: 353940200
Effective search space used: 353940200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.6 bits)