RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11035
(77 letters)
>gnl|CDD|234642 PRK00112, tgt, queuine tRNA-ribosyltransferase; Provisional.
Length = 366
Score = 111 bits (280), Expect = 2e-31
Identities = 34/68 (50%), Positives = 46/68 (67%), Gaps = 2/68 (2%)
Query: 7 PLQFKVLAECPVSNARTSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETLDCQIILGN 66
++F+++ AR +T PH VETP FMPVGT GT+KG+ P++L+ QIILGN
Sbjct: 2 MMKFELIKTD--GRARRGRLTTPHGVVETPAFMPVGTYGTVKGMTPEELKETGAQIILGN 59
Query: 67 TYHLGLKP 74
TYHL L+P
Sbjct: 60 TYHLWLRP 67
>gnl|CDD|223420 COG0343, Tgt, Queuine/archaeosine tRNA-ribosyltransferase
[Translation, ribosomal structure and biogenesis].
Length = 372
Score = 93.5 bits (233), Expect = 1e-24
Identities = 31/56 (55%), Positives = 39/56 (69%)
Query: 19 SNARTSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETLDCQIILGNTYHLGLKP 74
AR + PH +ETP FMPVGT GT+KG+ P++L+ L QIIL NTYHL L+P
Sbjct: 8 GGARVGRLETPHGVIETPAFMPVGTNGTVKGMTPEELKELGAQIILTNTYHLYLRP 63
>gnl|CDD|129522 TIGR00430, Q_tRNA_tgt, tRNA-guanine transglycosylase,
queuosine-34-forming. This tRNA-guanine
transglycosylase (tgt) catalyzes an exchange for the
guanine base at position 34 of many tRNAs; this
nucleotide is subsequently modified to queuosine. The
Archaea have a closely related enzyme that catalyzes a
base exchange for guanine at position 15 in some tRNAs,
a site that is subsequently converted to the
archaeal-specific modified base archaeosine
(7-formamidino-7-deazaguanosine), while Archaeoglobus
fulgidus has both enzymes [Protein synthesis, tRNA and
rRNA base modification].
Length = 368
Score = 90.9 bits (226), Expect = 1e-23
Identities = 34/68 (50%), Positives = 45/68 (66%), Gaps = 2/68 (2%)
Query: 10 FKVLAECPVSNARTSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETLDCQIILGNTYH 69
F++ +AR + PH VETPVFMPVGT GT+KG+ P++LE +IIL NTYH
Sbjct: 1 FELQKTD--KHARVGKLNTPHGSVETPVFMPVGTLGTVKGLTPEELEATGAEIILANTYH 58
Query: 70 LGLKPVEK 77
L L+P +K
Sbjct: 59 LWLRPGQK 66
>gnl|CDD|129541 TIGR00449, tgt_general, tRNA-guanine family transglycosylase.
Different tRNA-guanine transglycosylases catalyze
different tRNA base modifications. Two guanine base
substitutions by different enzymes described by the
model are involved in generating queuosine at position
34 in bacterial tRNAs and archaeosine at position 15 in
archaeal tRNAs. This model is designed for fragment
searching, so the superfamily is used loosely [Protein
synthesis, tRNA and rRNA base modification].
Length = 367
Score = 85.1 bits (211), Expect = 1e-21
Identities = 34/68 (50%), Positives = 45/68 (66%), Gaps = 2/68 (2%)
Query: 10 FKVLAECPVSNARTSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETLDCQIILGNTYH 69
F++ +AR + PH VETPVFMPVGT GT+KG+ P++L+ QIIL NTYH
Sbjct: 1 FEIKKTD--GHARVGRLKTPHGSVETPVFMPVGTLGTVKGLTPEELKKTGAQIILANTYH 58
Query: 70 LGLKPVEK 77
L L+P +K
Sbjct: 59 LYLRPGQK 66
>gnl|CDD|134464 PRK01008, PRK01008, queuine tRNA-ribosyltransferase; Provisional.
Length = 372
Score = 51.7 bits (124), Expect = 2e-09
Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 4/67 (5%)
Query: 8 LQFKVLAECPVSNARTSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETLDCQIILGNT 67
L+F++L + S AR + H ++TP F+PV T G +KG+ L+ + ++ NT
Sbjct: 3 LKFELLHQSKKSRARVGRIETAHGIIDTPAFVPVATNGALKGV----LDHSNIPLMFCNT 58
Query: 68 YHLGLKP 74
YHL + P
Sbjct: 59 YHLLVHP 65
>gnl|CDD|237418 PRK13534, PRK13534, 7-cyano-7-deazaguanine
tRNA-ribosyltransferase; Provisional.
Length = 639
Score = 36.5 bits (85), Expect = 3e-04
Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 21 ARTSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETLDCQIILGNTY 68
R + +ETP MPV + + P +++ L I++ N+Y
Sbjct: 11 GRIGKLKTNGKKIETPTIMPVINPK-KQTVDPDEIKKLGFDIVITNSY 57
>gnl|CDD|237417 PRK13533, PRK13533, 7-cyano-7-deazaguanine
tRNA-ribosyltransferase; Provisional.
Length = 487
Score = 27.5 bits (62), Expect = 0.51
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 22 RTSVMTLPHHDVETPVFMPV 41
R + PH VETP PV
Sbjct: 15 RIGKLKTPHGVVETPALFPV 34
>gnl|CDD|224288 COG1369, POP5, RNase P/RNase MRP subunit POP5 [Translation,
ribosomal structure and biogenesis].
Length = 124
Score = 26.2 bits (58), Expect = 1.3
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 18 VSNARTSVMTLPHHDVETPVFM-PVGTKGTIKGI 50
V R ++M + V + +G GTIK
Sbjct: 77 VDLVRAALMLAREVN-GKRVIIVVLGVSGTIKKA 109
>gnl|CDD|218770 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest light
for photosynthesis, and dissipate excess light energy
absorbed by the antenna pigments. The cyclisation of
lycopene (psi, psi-carotene) is a key branch point in
the pathway of carotenoid biosynthesis. Two types of
cyclic end groups are found in higher plant carotenoids:
the beta and epsilon rings. Carotenoids with two beta
rings are ubiquitous, and those with one beta and one
epsilon ring are common; however, carotenoids with two
epsilon rings are rare.
Length = 374
Score = 24.6 bits (54), Expect = 5.6
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 26 MTLPHHDVETPVFM 39
+ P HD + PV M
Sbjct: 160 VDNPPHDPDVPVIM 173
>gnl|CDD|99915 cd05532, POLBc_alpha, DNA polymerase type-B alpha subfamily
catalytic domain. Three DNA-dependent DNA polymerases
type B (alpha, delta, and epsilon) have been identified
as essential for nuclear DNA replication in eukaryotes.
DNA polymerase (Pol) alpha is almost exclusively
required for the initiation of DNA replication and the
priming of Okazaki fragments during elongation. In most
organisms no specific repair role, other than check
point control, has been assigned to this enzyme. Pol
alpha contains both polymerase and exonuclease domains,
but lacks exonuclease activity suggesting that the
exonuclease domain may be for structural purposes only.
Length = 400
Score = 24.1 bits (53), Expect = 9.6
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 23 TSVMTLPHHDVETPVFMPVGTKGTIKGILPQQLETL 58
T+V D + + KGILP+ + L
Sbjct: 46 TTVDRADPDDEDDEEPPLPPSDQE-KGILPRIIRKL 80
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
0.320 0.136 0.407
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,658,004
Number of extensions: 269342
Number of successful extensions: 180
Number of sequences better than 10.0: 1
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 10
Length of query: 77
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 31
Effective length of database: 8,897,318
Effective search space: 275816858
Effective search space used: 275816858
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 (24.2 bits)