RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6265
(91 letters)
>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 = 72.6 bits (179), Expect = 1e-18
Identities = 27/60 (45%), Positives = 40/60 (66%)
Query: 9 LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
L+R L I A D P E + LPA+C++K++PY YVPSKK++GEA G+ +P + +K
Sbjct: 27 LRRGKAKLVIIAEDCDPEEKVKLLPALCKEKNVPYVYVPSKKELGEACGKPRPVSALAIK 86
>gnl|CDD|179766 PRK04175, rpl7ae, 50S ribosomal protein L7Ae; Validated.
Length = 122
Score = 67.6 bits (166), Expect = 2e-16
Identities = 31/78 (39%), Positives = 45/78 (57%)
Query: 10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS 69
+R L + A DV P EI+ HLP +CE+K IPY YVPSKKD+G+A G + +
Sbjct: 43 ERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAAAAIVD 102
Query: 70 TESVAELYEEVKQEIGAL 87
EL E++ +++ L
Sbjct: 103 AGKAKELVEDIVEKVNEL 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 = 67.1 bits (164), Expect = 5e-16
Identities = 29/72 (40%), Positives = 43/72 (59%)
Query: 16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
L + A DV P EI+ HLPA+CE+K IPY YV +K+D+G A G + + E
Sbjct: 45 LVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKTKEDLGAAAGLEVGAAAAAIVDAGKAEE 104
Query: 76 LYEEVKQEIGAL 87
L +E+ +++ AL
Sbjct: 105 LLKEIVEKVEAL 116
>gnl|CDD|224277 COG1358, RPL8A, Ribosomal protein HS6-type (S12/L30/L7a)
[Translation, ribosomal structure and biogenesis].
Length = 116
Score = 59.6 bits (145), Expect = 4e-13
Identities = 29/79 (36%), Positives = 51/79 (64%), Gaps = 2/79 (2%)
Query: 9 LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
++R L + A DV+P E++ HLPA+CE+K++PY YV SKK++G+A+G K V+
Sbjct: 39 IERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVG--KEVRKVVAI 96
Query: 69 STESVAELYEEVKQEIGAL 87
+ A+ E++ +++ L
Sbjct: 97 VDKGFAKKLEDLVEKVEEL 115
>gnl|CDD|240382 PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-like; Provisional.
Length = 266
Score = 54.5 bits (131), Expect = 2e-10
Identities = 20/48 (41%), Positives = 31/48 (64%)
Query: 12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK 59
K L + A DV PIE++C LPA+C K++PYC + K +G+ + +K
Sbjct: 147 KKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK 194
>gnl|CDD|140249 PTZ00222, PTZ00222, 60S ribosomal protein L7a; Provisional.
Length = 263
Score = 47.4 bits (112), Expect = 9e-08
Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 9 LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIV 67
+++K + + A +V P+E++ +P +C IPY V +G+A+GRK C+ +
Sbjct: 144 IEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAITD 203
Query: 68 KSTESVAEL 76
+ E A L
Sbjct: 204 VNAEDEAAL 212
>gnl|CDD|235517 PRK05583, PRK05583, ribosomal protein L7Ae family protein;
Provisional.
Length = 104
Score = 29.6 bits (67), Expect = 0.093
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 36 CEDKDIPYCYVPSKKDIGEALGRKKPCICVIV--KSTESVAELYEEVKQ 82
C +IPY SK+++G A+GR + I + + + +L+ E ++
Sbjct: 55 CNKYNIPYIEGYSKEELGNAIGRDEIKILGVKDKNMAKKLLKLWNESQE 103
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 28.5 bits (64), Expect = 0.32
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 8/40 (20%)
Query: 54 EALGRKKPCICVIVKST----ESVAELYEEVKQEIGALPV 89
EALGRK + VK+ E + E++ ++ +E G L V
Sbjct: 50 EALGRK----ALAVKANVGDVEKIKEMFAQIDEEFGRLDV 85
>gnl|CDD|236077 PRK07714, PRK07714, hypothetical protein; Provisional.
Length = 100
Score = 27.8 bits (62), Expect = 0.46
Identities = 6/23 (26%), Positives = 14/23 (60%)
Query: 36 CEDKDIPYCYVPSKKDIGEALGR 58
C ++P V +++ +G A+G+
Sbjct: 56 CTYYNVPMRKVENRQQLGHAIGK 78
>gnl|CDD|202251 pfam02475, Met_10, Met-10+ like-protein. The methionine-10
mutant allele of N. crassa codes for a protein of
unknown function. However, homologous proteins have
been found in yeast suggesting this protein may be
involved in methionine biosynthesis, transport and/or
utilisation.
Length = 199
Score = 26.5 bits (59), Expect = 1.5
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 13/52 (25%)
Query: 20 AGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE 71
GD+ + I ++ +PY KK IGEA+ +K V+ K
Sbjct: 6 IGDIVILNI--------PEELMPY-----KKVIGEAILKKTKVKAVLRKVGI 44
>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase
HydF. This model describes the family of the [Fe]
hydrogenase maturation protein HypF as characterized in
Chlamydomonas reinhardtii and found, in an operon with
radical SAM proteins HydE and HydG, in numerous
bacteria. It has GTPase activity, can bind an 4Fe-4S
cluster, and is essential for hydrogenase activity
[Protein fate, Protein modification and repair].
Length = 391
Score = 26.7 bits (60), Expect = 1.6
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 8/51 (15%)
Query: 37 EDKDIPYCYVPSKKDIGEALGRKK--------PCICVIVKSTESVAELYEE 79
+++ IPY V +K D+GE + P I V + E + EL E
Sbjct: 111 KERKIPYIVVINKIDLGEESAELEKLEKKFGLPPIFVSALTGEGIDELKEA 161
>gnl|CDD|220479 pfam09936, Methyltrn_RNA_4, SAM-dependent RNA methyltransferase.
This family has a Rossmanoid fold, with a deep trefoil
knot in its C-terminal region. It has structural
similarity to RNA methyltransferases, and is likely to
function as an S-adenosyl-L-methionine (SAM)-dependent
RNA 2'-O methyltransferase.
Length = 185
Score = 26.0 bits (58), Expect = 2.3
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 11/47 (23%)
Query: 45 YVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW 91
Y P +K EAL +VK S+ E E++++ G P+
Sbjct: 73 YNPDRK---EALS--------LVKVVSSLEEAIEDIEKRTGQRPLIV 108
>gnl|CDD|222125 pfam13434, K_oxygenase, L-lysine 6-monooxygenase (NADPH-requiring).
This is family of Rossmann fold oxidoreductases that
catalyzes the NADPH-dependent hydroxylation of lysine at
the N6 position, EC:1.14.13.59.
Length = 335
Score = 25.9 bits (58), Expect = 3.2
Identities = 10/63 (15%), Positives = 24/63 (38%), Gaps = 5/63 (7%)
Query: 31 HLPAVCEDKDIPYCYVPSK--KDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALP 88
++P + + S+ L K+ +V +S AE++ ++ +
Sbjct: 156 YIPECAKPLPGERVFHSSEYLLRKPRLLAGKR---ITVVGGGQSAAEIFLDLLRRQPGYQ 212
Query: 89 VTW 91
+TW
Sbjct: 213 LTW 215
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 25.6 bits (57), Expect = 3.4
Identities = 10/38 (26%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 50 KDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGAL 87
+++ E LG + V + ES+ L+ +K++ G L
Sbjct: 49 EELAEELGSDL-VLPCDVTNDESIDALFATIKKKWGKL 85
>gnl|CDD|234652 PRK00128, ipk, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
Provisional.
Length = 286
Score = 25.5 bits (57), Expect = 3.8
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 8/52 (15%)
Query: 40 DIPYC------YVPSKKDIGEALGRKKPCICVIVKSTESV--AELYEEVKQE 83
D+P+C + + L C V+ K V ++Y+ + +
Sbjct: 136 DVPFCIYGGTALATGRGEKITPLKSPPSCWVVLAKPDIGVSTKDVYKNLDLD 187
>gnl|CDD|184174 PRK13602, PRK13602, putative ribosomal protein L7Ae-like;
Provisional.
Length = 82
Score = 25.1 bits (55), Expect = 3.8
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 34 AVCEDKDIPYCYVPSKKDIGEALG 57
A+ +K +P V S K +G+A G
Sbjct: 47 ALANEKGVPVSKVDSMKKLGKACG 70
>gnl|CDD|241464 cd13310, PH_RalGPS1_2, Ral GEF with PH domain and SH3 binding
motif 1 and 2 Pleckstrin homology (PH) domain. RalGPS1
(also called Ral GEF with PH domain and SH3 binding
motif 1;RALGEF2/ Ral guanine nucleotide exchange factor
2; RalA exchange factor RalGPS1; Ral guanine nucleotide
exchange factor RalGPS1A2; ras-specific guanine
nucleotide-releasing factor RalGPS1) and RalGPS2 (also
called Ral GEF with PH domain and SH3 binding motif 2;
Ral-A exchange factor RalGPS2; ras-specific guanine
nucleotide-releasing factor RalGPS22). They activate
small GTPase Ral proteins such as RalA and RalB by
stimulating the exchange of Ral bound GDP to GTP,
thereby regulating various downstream cellular
processes. Structurally they contain an N-terminal
Cdc25-like catalytic domain, followed by a PXXP motif
and a C-terminal PH domain. The Cdc25-like catalytic
domain interacts with Ral and its PH domain ensures the
correct membrane localization. Its PXXP motif is
thought to interact with the SH3 domain of Grb2. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from
other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 116
Score = 24.9 bits (55), Expect = 5.1
Identities = 7/12 (58%), Positives = 11/12 (91%)
Query: 4 TVQGPLQRKTIM 15
T+QG L+RKT++
Sbjct: 1 TMQGCLRRKTVL 12
>gnl|CDD|185104 PRK15182, PRK15182, Vi polysaccharide biosynthesis protein TviB;
Provisional.
Length = 425
Score = 25.4 bits (55), Expect = 5.6
Identities = 15/59 (25%), Positives = 28/59 (47%)
Query: 26 IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEI 84
+ I+ + + ++D Y P + + G+ R + ST +AEL +EV Q+I
Sbjct: 132 VPILARMSGMTFNQDFYVGYSPERINPGDKKHRLTNIKKITSGSTAQIAELIDEVYQQI 190
>gnl|CDD|215311 PLN02573, PLN02573, pyruvate decarboxylase.
Length = 578
Score = 24.7 bits (54), Expect = 9.7
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 52 IGEALGRKKPCIC---VIVKSTESVAELYE 78
I A G KK C+C VIV ++ EL E
Sbjct: 533 IATATGEKKDCLCFIEVIVHKDDTSKELLE 562
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
0.321 0.138 0.433
Gapped
Lambda K H
0.267 0.0825 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,383,593
Number of extensions: 344872
Number of successful extensions: 374
Number of sequences better than 10.0: 1
Number of HSP's gapped: 374
Number of HSP's successfully gapped: 22
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: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.0 bits)