RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13058
(238 letters)
>gnl|CDD|219817 pfam08389, Xpo1, Exportin 1-like protein. The sequences featured
in this family are similar to a region close to the
N-terminus of yeast exportin 1 (Xpo1, Crm1). This region
is found just C-terminal to an importin-beta N-terminal
domain (pfam03810) in many members of this family.
Exportin 1 is a nuclear export receptor that interacts
with leucine-rich nuclear export signal (NES) sequences,
and Ran-GTP, and is involved in translocation of
proteins out of the nucleus.
Length = 147
Score = 69.2 bits (170), Expect = 6e-15
Identities = 39/113 (34%), Positives = 54/113 (47%), Gaps = 7/113 (6%)
Query: 117 KNIITQLALALADLALQM--SAWEKPVVYIIEKL-SHKGSILALLEVLTVLPEEV---NV 170
K I +LALALA+LA Q S W ++ L S LL +L VLPEE+ +
Sbjct: 2 KFIRNKLALALAELAKQEWPSNWPTFFPDLVSLLSSSPSGCELLLRILKVLPEEIFDFSR 61
Query: 171 LKLGKNRREEFEEELKAAGPIVIEFLKTCQANCGDNVS-LQTKVLKCFTSWSS 222
L + RR ++ L++ P ++E L N S L + LKC SW S
Sbjct: 62 TPLTQQRRNRLKDLLRSQMPQILELLLQILENSVSAHSELLSATLKCLGSWLS 114
>gnl|CDD|197981 smart00913, IBN_N, Importin-beta N-terminal domain. Members of the
importin-beta (karyopherin-beta) family can bind and
transport cargo by themselves, or can form heterodimers
with importin-alpha. As part of a heterodimer,
importin-beta mediates interactions with the pore
complex, while importin-alpha acts as an adaptor protein
to bind the nuclear localisation signal (NLS) on the
cargo through the classical NLS import of proteins.
Importin-beta is a helicoidal molecule constructed from
19 HEAT repeats. Many nuclear pore proteins contain FG
sequence repeats that can bind to HEAT repeats within
importins.. which is important for importin-beta
mediated transport.
Length = 67
Score = 34.1 bits (79), Expect = 0.005
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 15/80 (18%)
Query: 29 ASQWLHQLQKSIYAWKIADEMLRHIYAWKIADEMLLHQNELGLEAVYFSAQTMRQKVQNA 88
A + L Q QKS W + E+L N +A T++ K+
Sbjct: 1 AEKQLEQFQKSPGFWLLLLEIL---------------ANSEDQYVRQLAAITLKNKITRR 45
Query: 89 FFELPSESHVSLRDSLIEHL 108
+ LP E +++SL+E L
Sbjct: 46 WSSLPEEEKEEIKNSLLELL 65
>gnl|CDD|239868 cd04403, RhoGAP_ARHGAP27_15_12_9, RhoGAP_ARHGAP27_15_12_9:
GTPase-activator protein (GAP) domain for Rho-like
GTPases found in ARHGAP27 (also called CAMGAP1),
ARHGAP15, 12 and 9-like proteins; This subgroup of
ARHGAPs are multidomain proteins that contain RhoGAP,
PH, SH3 and WW domains. Most members that are studied
show GAP activity towards Rac1, some additionally show
activity towards Cdc42. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 187
Score = 31.6 bits (72), Expect = 0.24
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 72 EAVYFSAQTMR-QKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGKNIITQLALAL 127
A+ S R V++ LP +H +L+ L HLCR + KN +T LA+
Sbjct: 99 AAIKLSDYEQRVSAVKDLIKSLPKPNHDTLK-MLFRHLCRVIEHGEKNRMTTQNLAI 154
>gnl|CDD|218726 pfam05742, NRDE, NRDE protein. In eukaryotes this family is
predicted to play a role in protein secretion and Golgi
organisation. In plants this family includes Solanum
habrochaites Cwp, which is involved in water
permeability in the cuticles of fruit. Mouse T10 has
been found to be expressed during early embryogenesis in
mice. This protein contains a conserved NRDE motif.
Length = 267
Score = 30.0 bits (68), Expect = 1.0
Identities = 13/48 (27%), Positives = 21/48 (43%)
Query: 87 NAFFELPSESHVSLRDSLIEHLCRTNDTSGKNIITQLALALADLALQM 134
N+ + P R L E L +++ S + II QL LA+ +
Sbjct: 153 NSLLDTPWPKVRVGRKLLEERLEASDELSVETIIQQLLEILANTSAFA 200
>gnl|CDD|222007 pfam13249, Prenyltrans_2, Prenyltransferase-like.
Length = 112
Score = 28.1 bits (63), Expect = 1.9
Identities = 8/57 (14%), Positives = 13/57 (22%), Gaps = 4/57 (7%)
Query: 3 SQPSLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKS----IYAWKIADEMLRHIYA 55
+ + L + +KA WL Q Y + L
Sbjct: 20 GGSDVAMTALALLALAALGETPDVKKALAWLLSQQNPDGGFGYDPQSNSPDLSSTAY 76
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 29.2 bits (66), Expect = 2.1
Identities = 13/38 (34%), Positives = 25/38 (65%), Gaps = 2/38 (5%)
Query: 123 LALALADLALQMSAWEKPVVY--IIEKLSHKGSILALL 158
+ LA+A++ L + + +P+++ II+ +S KG I LL
Sbjct: 22 ILLAVANVLLAAATFAEPILFGRIIDAISGKGDIFPLL 59
>gnl|CDD|117533 pfam08967, DUF1884, Domain of unknown function (DUF1884). This
domain is found in a set of hypothetical bacterial
proteins. It shows similarity to the N-terminus of
ATP-synthase.
Length = 85
Score = 27.4 bits (61), Expect = 2.2
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 157 LLEVLTVLPEEVNVLKLGKNRREEFEEELKAAGPIVIEFLK 197
L+ +L ++ E++N LK+ E FE ++ GP EFL
Sbjct: 7 LIRILEIIEEKINELKM-----EGFEPDIILVGPEFYEFLS 42
>gnl|CDD|222948 PHA02941, PHA02941, hypothetical protein; Provisional.
Length = 356
Score = 28.8 bits (64), Expect = 2.5
Identities = 13/45 (28%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 22 NKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIADEMLLHQ 66
NK KAS+++ QL + I + +++ L+H+ +++ +EM ++Q
Sbjct: 233 NKEANIKASEFILQLYEMIKSKITSEDFLKHVMVYQLKNEM-VYQ 276
>gnl|CDD|239245 cd02947, TRX_family, TRX family; composed of two groups: Group I,
which includes proteins that exclusively encode a TRX
domain; and Group II, which are composed of fusion
proteins of TRX and additional domains. Group I TRX is a
small ancient protein that alter the redox state of
target proteins via the reversible oxidation of an
active site dithiol, present in a CXXC motif, partially
exposed at the protein's surface. TRX reduces protein
disulfide bonds, resulting in a disulfide bond at its
active site. Oxidized TRX is converted to the active
form by TRX reductase, using reducing equivalents
derived from either NADPH or ferredoxins. By altering
their redox state, TRX regulates the functions of at
least 30 target proteins, some of which are enzymes and
transcription factors. It also plays an important role
in the defense against oxidative stress by directly
reducing hydrogen peroxide and certain radicals, and by
serving as a reductant for peroxiredoxins. At least two
major types of functional TRXs have been reported in
most organisms; in eukaryotes, they are located in the
cytoplasm and the mitochondria. Higher plants contain
more types (at least 20 TRX genes have been detected in
the genome of Arabidopsis thaliana), two of which (types
f amd m) are located in the same compartment, the
chloroplast. Also included in the alignment are TRX-like
domains which show sequence homology to TRX but do not
contain the redox active CXXC motif. Group II proteins,
in addition to either a redox active TRX or a TRX-like
domain, also contain additional domains, which may or
may not possess homology to known proteins.
Length = 93
Score = 26.8 bits (60), Expect = 4.0
Identities = 10/17 (58%), Positives = 15/17 (88%)
Query: 179 EEFEEELKAAGPIVIEF 195
EEFEE +K+A P+V++F
Sbjct: 1 EEFEELIKSAKPVVVDF 17
>gnl|CDD|178145 PLN02530, PLN02530, histidine-tRNA ligase.
Length = 487
Score = 27.8 bits (62), Expect = 6.4
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 7/49 (14%)
Query: 147 KLSHKGSILALLEVLTVLPEE------VNVLKLGKNRREEFEEELKAAG 189
K+S + + A+L+ + PEE V V KL K REE E+EL G
Sbjct: 227 KVSSRKVLQAVLKSYGI-PEESFAPVCVIVDKLEKLPREEIEKELDTLG 274
>gnl|CDD|235262 PRK04235, PRK04235, hypothetical protein; Provisional.
Length = 196
Score = 26.8 bits (60), Expect = 7.8
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 7/60 (11%)
Query: 138 EKPVVYII--EKLSH----KGSILALLEVLTVLPEEVN-VLKLGKNRREEFEEELKAAGP 190
++ +V I E++ G ++ E L L E N L GK R EEEL+
Sbjct: 136 KRVLVEIRTTERMDAPLGEDGKLVVDEEYLKFLVEVANEKLLRGKERLNRLEEELEELKE 195
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
0.317 0.130 0.379
Gapped
Lambda K H
0.267 0.0764 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,831,700
Number of extensions: 1096000
Number of successful extensions: 1100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1096
Number of HSP's successfully gapped: 22
Length of query: 238
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 144
Effective length of database: 6,768,326
Effective search space: 974638944
Effective search space used: 974638944
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: 57 (25.7 bits)