RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2927
(123 letters)
>gnl|CDD|224085 COG1163, DRG, Predicted GTPase [General function prediction only].
Length = 365
Score = 167 bits (425), Expect = 4e-52
Identities = 53/117 (45%), Positives = 78/117 (66%), Gaps = 1/117 (0%)
Query: 6 DQISIEELDIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLKLTRIYTKPKGQLPDYQSPVV 65
D +EEL+ + + P+ VP+SA N D+L E++W+ L L R+YTKP G+ PD+ P++
Sbjct: 250 DLPGLEELERLARKPNSVPISAKKGINLDELKERIWDVLGLIRVYTKPPGEEPDFDEPLI 309
Query: 66 LHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKVGKEHVLNDEDVVQIVKK 122
L ++ D C K+HR + + F+YA VWG SVKH Q+VG +HVL DED+V+I K
Sbjct: 310 LRRGS-TVGDVCRKIHRDLVENFRYARVWGKSVKHPGQRVGLDHVLEDEDIVEIHAK 365
>gnl|CDD|133436 cd01666, TGS_DRG_C, TGS_DRG_C: DRG (developmentally regulated
GTP-binding protein) represents a family of GTP-binding
proteins that includes two members, DRG1 and DRG2. DRG1
and DRG2 have a C-terminal TGS domain (named after the
ThrRS, GTPase, and SpoT proteins where it occurs) with a
predominantly beta-sheet structure. The function of TGS
is unknown but its presence in two types of regulatory
proteins (the DRG GTPases and guanosine polyphosphate
phosphohydrolases/synthetases) suggests a ligand (most
likely nucleotide)-binding, regulatory role.
Length = 75
Score = 133 bits (338), Expect = 2e-42
Identities = 50/76 (65%), Positives = 61/76 (80%), Gaps = 1/76 (1%)
Query: 46 LTRIYTKPKGQLPDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKV 105
L R+YTKPKGQ PD+ PV+L ++ED CNK+H+ + K+FKYALVWGSSVKH PQ+V
Sbjct: 1 LIRVYTKPKGQEPDFDEPVIL-RRGSTVEDVCNKIHKDLVKQFKYALVWGSSVKHSPQRV 59
Query: 106 GKEHVLNDEDVVQIVK 121
G +HVL DEDVVQIVK
Sbjct: 60 GLDHVLEDEDVVQIVK 75
>gnl|CDD|206683 cd01896, DRG, Developmentally Regulated GTP-binding protein (DRG).
The developmentally regulated GTP-binding protein (DRG)
subfamily is an uncharacterized member of the Obg
family, an evolutionary branch of GTPase superfamily
proteins. GTPases act as molecular switches regulating
diverse cellular processes. DRG2 and DRG1 comprise the
DRG subfamily in eukaryotes. In view of their widespread
expression in various tissues and high conservation
among distantly related species in eukaryotes and
archaea, DRG proteins may regulate fundamental cellular
processes. It is proposed that the DRG subfamily
proteins play their physiological roles through RNA
binding.
Length = 233
Score = 85.3 bits (212), Expect = 1e-21
Identities = 27/47 (57%), Positives = 35/47 (74%)
Query: 6 DQISIEELDIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLKLTRIYTK 52
D ISIEELD + +IP+ V +SA N D+LLE++W+YL L RIYTK
Sbjct: 187 DLISIEELDRLARIPNSVVISAEKDLNLDELLERIWDYLGLIRIYTK 233
>gnl|CDD|217243 pfam02824, TGS, TGS domain. The TGS domain is named after ThrRS,
GTPase, and SpoT. Interestingly, TGS domain was detected
also at the amino terminus of the uridine kinase from
the spirochaete Treponema pallidum (but not any other
organism, including the related spirochaete Borrelia
burgdorferi). TGS is a small domain that consists of ~50
amino acid residues and is predicted to possess a
predominantly beta-sheet structure. There is no direct
information on the functions of the TGS domain, but its
presence in two types of regulatory proteins (the
GTPases and guanosine polyphosphate
phosphohydrolases/synthetases) suggests a ligand (most
likely nucleotide)-binding, regulatory role.
Length = 60
Score = 69.4 bits (171), Expect = 4e-17
Identities = 27/74 (36%), Positives = 38/74 (51%), Gaps = 15/74 (20%)
Query: 48 RIYTKPKGQLPDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKVGK 107
R+YT P G++P+ + EDF +H + K+F A V G Q+VG
Sbjct: 2 RVYT-PDGKVPELPRG-------STPEDFAYAIHTDLGKKFIGAKVNG-------QRVGL 46
Query: 108 EHVLNDEDVVQIVK 121
+HVL D DVV+IV
Sbjct: 47 DHVLEDGDVVEIVT 60
>gnl|CDD|133435 cd01616, TGS, The TGS domain, named after the ThrRS, GTPase, and
SpoT/RelA proteins where it occurs, is structurally
similar to ubiquitin. TGS is a small domain of about 50
amino acid residues with a predominantly beta-sheet
structure. There is no direct information on the
function of the TGS domain, but its presence in two
types of regulatory proteins (the GTPases and guanosine
polyphosphate phosphohydrolases/synthetases) suggests a
ligand (most likely nucleotide)-binding, regulatory
role.
Length = 60
Score = 48.9 bits (117), Expect = 4e-09
Identities = 23/74 (31%), Positives = 28/74 (37%), Gaps = 15/74 (20%)
Query: 48 RIYTKPKGQLPDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKVGK 107
I+T S V L + DF K+H + K F ALV G Q V
Sbjct: 2 IIFTPD-------GSAVEL-PKGATAMDFALKIHTDLGKGFIGALVNG-------QLVDL 46
Query: 108 EHVLNDEDVVQIVK 121
+ L D D V IV
Sbjct: 47 SYTLQDGDTVSIVT 60
>gnl|CDD|133441 cd04938, TGS_Obg-like, TGS_Obg-like: The C-terminal TGS domain of
Obg-like GTPases such as those present in DRG
(developmentally regulated GTP-binding protein), and
GTP-binding proteins Ygr210 and YchF. The TGS domain
(named after the ThrRS, GTPase, and SpoT proteins where
it occurs) is a small domain of about 50 amino acid
residues with a predominantly beta-sheet structure.
There is no direct information on the function of the
TGS domain, but its presence in two types of regulatory
proteins (the GTPases and guanosine polyphosphate
phosphohydrolases/synthetases) suggests a ligand (most
likely nucleotide)-binding, regulatory role.
Length = 76
Score = 47.4 bits (113), Expect = 2e-08
Identities = 13/83 (15%), Positives = 30/83 (36%), Gaps = 14/83 (16%)
Query: 46 LTRIYTKPKGQL-------PDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSV 98
L +Y ++ V++ ++ D K+H + K F A+
Sbjct: 1 LIPVYPVKNIHTFTNGSGGNVFRDCVLV-KKGTTVGDVARKIHGDLEKGFIEAVGG---- 55
Query: 99 KHQPQKVGKEHVLNDEDVVQIVK 121
+ + GK+ +L D+++
Sbjct: 56 --RRRLEGKDVILGKNDILKFKT 76
>gnl|CDD|133439 cd01669, TGS_Ygr210_C, TGS_Ygr210_C: The C-terminal TGS domain of
Ygr210 GTP-binding protein which is a member of Obg-like
family of GTPases, and present in archaea. Several
Obg-like family members possess a C-terminal RNA-binding
domain, the TGS domain, which is also present in
threonyl-tRNA synthetase and in bacterial guanosine
polyphosphatase SpoT. TGS is a small domain of about 50
amino acid residues with a predominantly beta-sheet
structure. There is no direct information on the
function of the TGS domain, but its presence in two
types of regulatory proteins (the GTPases and guanosine
polyphosphate phosphohydrolases/synthetases) suggests a
ligand (most likely nucleotide)-binding, regulatory
role.
Length = 76
Score = 30.3 bits (69), Expect = 0.054
Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 9/64 (14%)
Query: 57 LPDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKVGKEHVLNDEDV 116
LPD L + D +H I F +A+ + ++VG+++ L DV
Sbjct: 21 LPD----AFLLPKGSTARDLAYAIHTDIGDGFLHAI----DARTG-RRVGEDYELKHRDV 71
Query: 117 VQIV 120
++IV
Sbjct: 72 IKIV 75
>gnl|CDD|184634 PRK14339, PRK14339, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 420
Score = 30.4 bits (69), Expect = 0.19
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 9/53 (16%)
Query: 26 SAHHKWNFDDLLEKMWEYLKLTRIYTKPKGQLPDYQSPVVLHTDRRSIEDFCN 78
S H K +F DLL+K+ E L RI + SP LH D + +E+F
Sbjct: 192 SEHEKVDFSDLLDKLSEIEGLERI---------RFTSPHPLHMDDKFLEEFAK 235
>gnl|CDD|236584 PRK09602, PRK09602, translation-associated GTPase; Reviewed.
Length = 396
Score = 30.2 bits (69), Expect = 0.23
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 74 EDFCNKLHRTIAKEFKYALVWGSSVKHQPQKVGKEHVLNDEDVVQIV 120
D K+H I + F YA+ + + +++G+++ L D DV++IV
Sbjct: 352 RDLAYKIHTDIGEGFLYAI----DARTK-RRIGEDYELKDGDVIKIV 393
>gnl|CDD|206681 cd01894, EngA1, EngA1 GTPase contains the first domain of EngA.
This EngA1 subfamily CD represents the first GTPase
domain of EngA and its orthologs, which are composed of
two adjacent GTPase domains. Since the sequences of the
two domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family. Although the exact function of
these proteins has not been elucidated, studies have
revealed that the E. coli EngA homolog, Der, and
Neisseria gonorrhoeae EngA are essential for cell
viability. A recent report suggests that E. coli Der
functions in ribosome assembly and stability.
Length = 157
Score = 29.3 bits (67), Expect = 0.27
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYL 44
+P+SA H DLL+ + E L
Sbjct: 136 IPISAEHGRGIGDLLDAILELL 157
>gnl|CDD|206685 cd01898, Obg, Obg GTPase. The Obg nucleotide binding protein
subfamily has been implicated in stress response,
chromosome partitioning, replication initiation,
mycelium development, and sporulation. Obg proteins are
among a large group of GTP binding proteins conserved
from bacteria to humans. The E. coli homolog, ObgE is
believed to function in ribosomal biogenesis. Members of
the subfamily contain two equally and highly conserved
domains, a C-terminal GTP binding domain and an
N-terminal glycine-rich domain.
Length = 170
Score = 29.3 bits (67), Expect = 0.29
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 21 HCVPLSAHHKWNFDDLLEKMWEYL 44
P+SA D+LL+K+ + L
Sbjct: 147 KVFPISALTGEGLDELLKKLAKLL 170
>gnl|CDD|234125 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like)
[Unknown function, General].
Length = 351
Score = 29.7 bits (68), Expect = 0.35
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 6 DQISIEELDII-YKIPHCVPLSAHHKWNFDDLLEKMWEYL 44
D + ++ + P V +SA D LLE + E L
Sbjct: 312 DLLDEPRIERLEEGYPEAVFVSAKTGEGLDLLLEAIAERL 351
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase. The
Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show sequence
conservation in the region between the Walker A and B
motifs (G1 and G3 box motifs), to the exclusion of other
GTPases. TrmE is ubiquitous in bacteria and is a
widespread mitochondrial protein in eukaryotes, but is
absent from archaea. The yeast member of TrmE family,
MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein involved
in cell division control. Era is characterized by a
distinct derivative of the KH domain (the pseudo-KH
domain) which is located C-terminal to the GTPase
domain. EngA and its orthologs are composed of two
GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family.
Length = 161
Score = 28.8 bits (65), Expect = 0.51
Identities = 9/42 (21%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 5 SDQISIEELDIIYKIP--HCVPLSAHHKWNFDDLLEKMWEYL 44
S++ + + +P + +SA D+L +K+ E L
Sbjct: 120 SEEEELLRERKLELLPDLPVIAVSALPGEGIDELRKKIAELL 161
>gnl|CDD|206666 cd01878, HflX, HflX GTPase family. HflX subfamily. A distinct
conserved domain with a glycine-rich segment N-terminal
of the GTPase domain characterizes the HflX subfamily.
The E. coli HflX has been implicated in the control of
the lambda cII repressor proteolysis, but the actual
biological functions of these GTPases remain unclear.
HflX is widespread, but not universally represented in
all three superkingdoms.
Length = 204
Score = 28.6 bits (65), Expect = 0.73
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 6 DQISIEELD--IIYKIPHCVPLSAHHKWNFDDLLEKMWEYL 44
D + EEL+ + P V +SA D L E + E L
Sbjct: 164 DLLDDEELEERLRAGRPDAVFISAKTGEGLDLLKEAIEELL 204
>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit
gamma; Validated.
Length = 411
Score = 28.7 bits (65), Expect = 0.78
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLKL-TRIYTKP 53
+P+SA HK N D L+E + E + R KP
Sbjct: 179 IPVSALHKVNIDALIEAIEEEIPTPERDLDKP 210
>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit
(eIF-2gamma; GTPase) [Translation, ribosomal structure
and biogenesis].
Length = 415
Score = 28.5 bits (64), Expect = 0.86
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
+P+SA HK N D L+E + +Y+
Sbjct: 180 IPISAQHKANIDALIEAIEKYIP 202
>gnl|CDD|223610 COG0536, Obg, Predicted GTPase [General function prediction only].
Length = 369
Score = 27.5 bits (62), Expect = 1.6
Identities = 9/39 (23%), Positives = 16/39 (41%)
Query: 10 IEELDIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLKLTR 48
+ L +SA + D+LL + E L+ T+
Sbjct: 298 KKALAEALGWEVFYLISALTREGLDELLRALAELLEETK 336
>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA. EngA
(YfgK, Der) is a ribosome-associated essential GTPase
with a duplication of its GTP-binding domain. It is
broadly to universally distributed among bacteria. It
appears to function in ribosome biogenesis or stability
[Protein synthesis, Other].
Length = 429
Score = 27.8 bits (63), Expect = 1.6
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYL 44
+P+SA H DLL+ + E L
Sbjct: 138 IPISAEHGRGIGDLLDAILELL 159
>gnl|CDD|133438 cd01668, TGS_RelA_SpoT, TGS_RelA_SpoT: The RelA (SpoT) protein,
also referred to as ppGpp hydrolase/synthetase, is a
ribosome-associated protein that is activated during
amino acid starvation and thought to mediate the
stringent response. RelA contains a TGS domain, named
after the Threonyl-tRNA Synthetase, GTPase, and SpoT
proteins where it occurs. The function of the TGS
domain is unknown.
Length = 60
Score = 25.9 bits (58), Expect = 1.8
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 21/75 (28%)
Query: 49 IYTKPKGQ---LPDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKV 105
++T PKG+ LP + + DF +H I A V G + V
Sbjct: 3 VFT-PKGEIIELPAGATVL----------DFAYAIHTEIGNRCVGAKVNG-------KLV 44
Query: 106 GKEHVLNDEDVVQIV 120
VL D D+V+I+
Sbjct: 45 PLSTVLKDGDIVEII 59
>gnl|CDD|216417 pfam01293, PEPCK_ATP, Phosphoenolpyruvate carboxykinase.
Length = 467
Score = 27.5 bits (62), Expect = 1.9
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 24 PLSAHHKWNFDDLLEKMWEYLKLTRIYTKPK--GQLPDYQSPVVLHTDR 70
P+S FD L E++ +YL ++ G PDY+ V + T+R
Sbjct: 67 PISPEK---FDALKERVLDYLSGKDLFVVDLFAGADPDYRLKVRVVTER 112
>gnl|CDD|225171 COG2262, HflX, GTPases [General function prediction only].
Length = 411
Score = 27.2 bits (61), Expect = 2.3
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 3 KVSDQISIEELDIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLK 45
+ D+ + EL+ P+ V +SA D L E++ E L
Sbjct: 316 LLEDEEILAELE--RGSPNPVFISAKTGEGLDLLRERIIELLS 356
>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA. This model describes
a univeral, mostly one-gene-per-genome GTP-binding
protein that associates with ribosomal subunits and
appears to play a role in ribosomal RNA maturation. This
GTPase, related to the nucleolar protein Obg, is
designated CgtA in bacteria. Mutations in this gene are
pleiotropic, but it appears that effects on cellular
functions such as chromosome partition may be secondary
to the effect on ribosome structure. Recent work done in
Vibrio cholerae shows an essential role in the stringent
response, in which RelA-dependent ability to synthesize
the alarmone ppGpp is required for deletion of this
GTPase to be lethal [Protein synthesis, Other].
Length = 329
Score = 27.0 bits (61), Expect = 2.8
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
P+SA D+LL + E L+
Sbjct: 307 FPISALTGEGLDELLYALAELLE 329
>gnl|CDD|143375 cd07870, STKc_PFTAIRE2, Catalytic domain of the Serine/Threonine
Kinase, PFTAIRE-2 kinase. Serine/Threonine Kinases
(STKs), PFTAIRE-2 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PFTAIRE-2 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. PFTAIRE-2 shares sequence
similarity with Cyclin-Dependent Kinases (CDKs), which
belong to a large family of STKs that are regulated by
their cognate cyclins. Together, CDKs and cyclins are
involved in the control of cell-cycle progression,
transcription, and neuronal function. PFTAIRE-2 is also
referred to as ALS2CR7 (amyotrophic lateral sclerosis 2
(juvenile) chromosome region candidate 7). It may be
associated with amyotrophic lateral sclerosis 2 (ALS2),
an autosomal recessive form of juvenile ALS. The
function of PFTAIRE-2 is not yet known.
Length = 291
Score = 26.9 bits (59), Expect = 2.9
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 37 LEKMWEYLKLTRIYTKPK-GQLPDYQSPVVLHTDRRSIEDFCNKLHRTIAKE 87
LEK+W L + T P +LP+Y+ L + + +L R E
Sbjct: 214 LEKIWTVLGVPTEDTWPGVSKLPNYKPEWFLPCKPQQLRVVWKRLSRPPKAE 265
>gnl|CDD|217399 pfam03167, UDG, Uracil DNA glycosylase superfamily.
Length = 143
Score = 26.1 bits (58), Expect = 3.6
Identities = 6/29 (20%), Positives = 14/29 (48%)
Query: 16 IYKIPHCVPLSAHHKWNFDDLLEKMWEYL 44
+ +PH PL+ + + + ++ E L
Sbjct: 115 VLPLPHPSPLNRNPGFKRPEAFKEALEDL 143
>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit
gamma. This model represents the archaeal translation
initiation factor 2 subunit gamma and is found in all
known archaea. eIF-2 functions in the early steps of
protein synthesis by forming a ternary complex with GTP
and initiator tRNA.
Length = 406
Score = 26.6 bits (59), Expect = 3.9
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLKL 46
+P+SA H N D LLE + +++
Sbjct: 174 IPVSALHNANIDALLEAIEKFIPT 197
>gnl|CDD|206675 cd01888, eIF2_gamma, Gamma subunit of initiation factor 2 (eIF2
gamma). eIF2 is a heterotrimeric translation initiation
factor that consists of alpha, beta, and gamma subunits.
The GTP-bound gamma subunit also binds initiator
methionyl-tRNA and delivers it to the 40S ribosomal
subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is
released from the ribosome. The gamma subunit has no
intrinsic GTPase activity, but is stimulated by the
GTPase activating protein (GAP) eIF5, and GDP/GTP
exchange is stimulated by the guanine nucleotide
exchange factor (GEF) eIF2B. eIF2B is a heteropentamer,
and the epsilon chain binds eIF2. Both eIF5 and
eIF2B-epsilon are known to bind strongly to eIF2-beta,
but have also been shown to bind directly to eIF2-gamma.
It is possible that eIF2-beta serves simply as a
high-affinity docking site for eIF5 and eIF2B-epsilon,
or that eIF2-beta serves a regulatory role. eIF2-gamma
is found only in eukaryotes and archaea. It is closely
related to SelB, the selenocysteine-specific elongation
factor from eubacteria. The translational factor
components of the ternary complex, IF2 in eubacteria and
eIF2 in eukaryotes are not the same protein (despite
their unfortunately similar names). Both factors are
GTPases; however, eubacterial IF-2 is a single
polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is
a member of the same family as eubacterial IF2, but the
two proteins are only distantly related. This family
includes translation initiation, elongation, and release
factors.
Length = 197
Score = 25.7 bits (57), Expect = 6.2
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
+P+SA K+N D L E + + +
Sbjct: 171 IPISAQLKYNIDVLCEYIVKKIP 193
>gnl|CDD|224779 COG1866, PckA, Phosphoenolpyruvate carboxykinase (ATP) [Energy
production and conversion].
Length = 529
Score = 25.8 bits (57), Expect = 8.6
Identities = 7/27 (25%), Positives = 12/27 (44%), Gaps = 3/27 (11%)
Query: 24 PLSAHHKWNFDDLLEKMWEYLKLTRIY 50
P+S FD L + +YL ++
Sbjct: 83 PISPET---FDRLKGDVTDYLSGKDLF 106
>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain. This
domain contains a P-loop motif, also found in several
other families such as pfam00071, pfam00025 and
pfam00063. Elongation factor Tu consists of three
structural domains, this plus two C-terminal beta barrel
domains.
Length = 184
Score = 25.2 bits (56), Expect = 9.2
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 23 VPLSAHHKWNFDDLLE 38
VP SA D+LLE
Sbjct: 161 VPGSALTGEGIDELLE 176
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 0.419
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,274,408
Number of extensions: 535777
Number of successful extensions: 551
Number of sequences better than 10.0: 1
Number of HSP's gapped: 543
Number of HSP's successfully gapped: 43
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
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 (24.1 bits)