RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2576
(80 letters)
>gnl|CDD|216240 pfam01008, IF-2B, Initiation factor 2 subunit family. This family
includes initiation factor 2B alpha, beta and delta
subunits from eukaryotes, initiation factor 2B subunits
1 and 2 from archaebacteria and some proteins of unknown
function from prokaryotes. Initiation factor 2 binds to
Met-tRNA, GTP and the small ribosomal subunit. Members
of this family have also been characterized as
5-methylthioribose- 1-phosphate isomerases, an enzyme of
the methionine salvage pathway. The crystal structure of
Ypr118w, a non-essential, low-copy number gene product
from Saccharomyces cerevisiae, reveals a dimeric protein
with two domains and a putative active site cleft.
Length = 281
Score = 61.9 bits (151), Expect = 3e-13
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLV-SKVQVFNPEYDYVPPELV 73
V+A YK P+F D+D F PE+VL + ++V NP +DY PPEL+
Sbjct: 212 FYVVAETYKFDPRFPL--DEDIFIEERDPEEVLYRTGVRIAPENLKVRNPAFDYTPPELI 269
Query: 74 SLFISN 79
+L I+
Sbjct: 270 TLIITE 275
>gnl|CDD|224105 COG1184, GCD2, Translation initiation factor 2B subunit, eIF-2B
alpha/beta/delta family [Translation, ribosomal
structure and biogenesis].
Length = 301
Score = 50.4 bits (121), Expect = 5e-09
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVS 74
V+A YK P+ L D P +V E ++V NP +D PPE +
Sbjct: 224 FYVVAESYKFVPKTL--LDTLVEIELRDPLEVAREEPL---GNLKVRNPAFDVTPPEYID 278
Query: 75 LFISN 79
I+
Sbjct: 279 AIITE 283
>gnl|CDD|233008 TIGR00524, eIF-2B_rel, eIF-2B alpha/beta/delta-related
uncharacterized proteins. This model, eIF-2B_rel,
describes half of a superfamily, where the other half
consists of eukaryotic translation initiation factor 2B
(eIF-2B) subunits alpha, beta, and delta. It is unclear
whether the eIF-2B_rel set is monophyletic, or whether
they are all more closely related to each other than to
any eIF-2B subunit because the eIF-2B clade is highly
derived. Members of this branch of the family are all
uncharacterized with respect to function and are found
in the Archaea, Bacteria, and Eukarya, although a number
are described as putative translation intiation factor
components. Proteins found by eIF-2B_rel include at
least three clades, including a set of uncharacterized
eukaryotic proteins, a set found in some but not all
Archaea, and a set universal so far among the Archaea
and closely related to several uncharacterized bacterial
proteins [Unknown function, General].
Length = 303
Score = 39.3 bits (92), Expect = 4e-05
Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 13/68 (19%)
Query: 17 VLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEH-RDLVSKVQVFNPEYDYVPP 70
V APL + C D I PE+V R V+V+NP +D P
Sbjct: 236 VAAPLSTFDTKTSCGED-------IVIEERDPEEVAQVGGVRIAPLGVKVYNPAFDITPH 288
Query: 71 ELVSLFIS 78
+L+ I+
Sbjct: 289 DLIDAIIT 296
>gnl|CDD|188057 TIGR00511, ribulose_e2b2, ribose-1,5-bisphosphate isomerase, e2b2
family. The delineation of this family was based
originally, in part, on a discussion and
neighbor-joining phylogenetic study by Kyrpides and
Woese of archaeal and other proteins homologous to the
alpha, beta, and delta subunits of eukaryotic initiation
factor 2B (eIF-2B), a five-subunit molecule that
catalyzes GTP recycling for eIF-2. Recently, Sato, et
al. assigned the function ribulose-1,5 bisphosphate
isomerase [Energy metabolism, Other].
Length = 301
Score = 38.6 bits (90), Expect = 8e-05
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 12/69 (17%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEHRDLVSKVQVFNPEYDYVP 69
+V A YK P+ + + P +VL E + V+V NP +D P
Sbjct: 220 FMVAAETYKFHPKTI-------TGELVEIEERDPTEVLDEEDLKQLGNVKVRNPAFDVTP 272
Query: 70 PELVSLFIS 78
PE V I+
Sbjct: 273 PEYVDAIIT 281
>gnl|CDD|236282 PRK08535, PRK08535, translation initiation factor IF-2B subunit
delta; Provisional.
Length = 310
Score = 37.2 bits (87), Expect = 2e-04
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 12/68 (17%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEHRDLVSKVQVFNPEYDYVP 69
+V A YK SP+ L + P +VL E + V+V NP +D P
Sbjct: 225 FMVAAETYKFSPKTL-------LGELVEIEERDPTEVLPEEILAKLPGVKVRNPAFDVTP 277
Query: 70 PELVSLFI 77
PE + I
Sbjct: 278 PEYIDAII 285
>gnl|CDD|235578 PRK05720, mtnA, methylthioribose-1-phosphate isomerase; Reviewed.
Length = 344
Score = 30.6 bits (70), Expect = 0.046
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 42 SPEKVLSYEHRDLVSK-VQVFNPEYDYVPPELVS 74
PE+V + + V+V+NP +D P EL++
Sbjct: 287 DPEEVTEVGGVRIAPEGVKVYNPAFDVTPAELIT 320
>gnl|CDD|223260 COG0182, COG0182, Predicted translation initiation factor 2B
subunit, eIF-2B alpha/beta/delta family [Translation,
ribosomal structure and biogenesis].
Length = 346
Score = 29.2 bits (66), Expect = 0.14
Identities = 22/82 (26%), Positives = 33/82 (40%), Gaps = 24/82 (29%)
Query: 13 YQVIVLA-----PLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-----LVSKVQ--- 59
YQ+ VLA P Y +P T + + + + E RD V V+
Sbjct: 252 YQLAVLAKHHGIPFYVAAPL-------STIDFELKSGEDIPIEERDPEEVLEVGGVRIAP 304
Query: 60 ----VFNPEYDYVPPELVSLFI 77
+NP +D PPEL++ I
Sbjct: 305 EGVEAYNPAFDVTPPELITGII 326
>gnl|CDD|168237 PRK05772, PRK05772, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 363
Score = 27.0 bits (60), Expect = 0.88
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 55 VSKVQVFNPEYDYVPPELVSLFIS 78
V V+NP +D PP+ ++ I+
Sbjct: 321 PEDVNVYNPVFDVTPPKYITGIIT 344
>gnl|CDD|180362 PRK06036, PRK06036, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 339
Score = 27.0 bits (60), Expect = 0.93
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 58 VQVFNPEYDYVPPELVSLFIS 78
V V+NP +D P E V+ I+
Sbjct: 303 VPVYNPAFDATPMENVTAIIT 323
>gnl|CDD|182731 PRK10788, PRK10788, periplasmic folding chaperone; Provisional.
Length = 623
Score = 26.5 bits (59), Expect = 1.7
Identities = 10/19 (52%), Positives = 15/19 (78%), Gaps = 2/19 (10%)
Query: 32 YDQDTFNNFISPEKV-LSY 49
YDQ+ NNF++PE+ +SY
Sbjct: 218 YDQNK-NNFMAPEQFKVSY 235
>gnl|CDD|169386 PRK08334, PRK08334, translation initiation factor IF-2B subunit
beta; Validated.
Length = 356
Score = 26.1 bits (57), Expect = 1.8
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 42 SPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISN 79
SPE+VL+ + V V+NP +D P + ++ I++
Sbjct: 300 SPEEVLTCGGCRIAPDVDVYNPAFDVTPHKYLTGIITD 337
>gnl|CDD|226741 COG4291, COG4291, Predicted membrane protein [Function unknown].
Length = 228
Score = 25.1 bits (55), Expect = 4.2
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 2 PCLGSNLCSPVYQVIVLAPLYKLSPQFL 29
+G+NL Y ++ + L +L+P +L
Sbjct: 47 ILIGANLFFLAYLLLAVLRLPRLTPSYL 74
>gnl|CDD|233881 TIGR02470, sucr_synth, sucrose synthase. This model represents
sucrose synthase, an enzyme that, despite its name,
generally uses rather produces sucrose. Sucrose plus UDP
(or ADP) becomes D-fructose plus UDP-glucose (or
ADP-glucose), which is then available for cell wall (or
starch) biosynthesis. The enzyme is homologous to
sucrose phosphate synthase, which catalyzes the
penultimate step in sucrose synthesis. Sucrose synthase
is found, so far, exclusively in plants and
cyanobacteria [Energy metabolism, Biosynthesis and
degradation of polysaccharides].
Length = 784
Score = 25.0 bits (55), Expect = 4.5
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 9/38 (23%)
Query: 42 SPEKVLSYEHR------DL---VSKVQVFNPEYDYVPP 70
+ + V YE L V + VF+P+++ V P
Sbjct: 467 TKDSVGQYESHQAFTMPGLYRVVHGIDVFDPKFNIVSP 504
>gnl|CDD|179097 PRK00723, PRK00723, phosphatidylserine decarboxylase; Provisional.
Length = 297
Score = 24.9 bits (55), Expect = 5.8
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 38 NNFISPE--KVLSYEHRDLVSKVQV 60
N ISP ++L+YE+ DL S QV
Sbjct: 106 NILISPGDGRLLAYENIDLNSLFQV 130
>gnl|CDD|173670 cd05579, STKc_MAST_like, Catalytic domain of Microtubule-associated
serine/threonine kinase-like proteins. Serine/Threonine
Kinases (STKs), Microtubule-associated serine/threonine
(MAST) kinase subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The MAST kinase subfamily is part of a larger
superfamily that includes the catalytic domains of other
protein STKs, protein tyrosine kinases, RIO kinases,
aminoglycoside phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. The MAST kinase subfamily
includes MAST kinases, MAST-like (MASTL) kinases, and
fungal kinases with similarity to Saccharomyces
cerevisiae Rim15 and Schizosaccharomyces pombe cek1.
MAST kinases contain an N-terminal domain of unknown
function, a central catalytic domain, and a C-terminal
PDZ domain that mediates protein-protein interactions.
MASTL kinases carry only a catalytic domain which
contains a long insert relative to other kinases. The
fungal kinases in this subfamily harbor other domains in
addition to a central catalytic domain, which also
contains an insert relative to MAST kinases like MASTL.
Rim15 contains a C-terminal signal receiver (REC) domain
while cek1 contains an N-terminal PAS domain. MAST
kinases are cytoskeletal associated kinases of unknown
function that are also expressed at neuromuscular
junctions and postsynaptic densities. The fungal
proteins Rim15 and cek1 are involved in the regulation
of meiosis and mitosis, respectively.
Length = 265
Score = 24.1 bits (53), Expect = 9.2
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 6/37 (16%)
Query: 34 QDTFNNFIS-----PEKV-LSYEHRDLVSKVQVFNPE 64
++ F N ++ PE V +S E DL+SK+ V +PE
Sbjct: 207 EEIFQNILNGKIEWPEDVEVSDEAIDLISKLLVPDPE 243
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
0.322 0.139 0.426
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,063,293
Number of extensions: 312428
Number of successful extensions: 247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 243
Number of HSP's successfully gapped: 16
Length of query: 80
Length of database: 10,937,602
Length adjustment: 49
Effective length of query: 31
Effective length of database: 8,764,256
Effective search space: 271691936
Effective search space used: 271691936
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 (21.9 bits)
S2: 53 (24.2 bits)