RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17417
(87 letters)
>gnl|CDD|216028 pfam00621, RhoGEF, RhoGEF domain. Guanine nucleotide exchange
factor for Rho/Rac/Cdc42-like GTPases Also called
Dbl-homologous (DH) domain. It appears that pfam00169
domains invariably occur C-terminal to RhoGEF/DH
domains.
Length = 179
Score = 76.9 bits (190), Expect = 2e-19
Identities = 32/82 (39%), Positives = 48/82 (58%), Gaps = 7/82 (8%)
Query: 1 MAELLQTERTYVKDLDTCIKVFLQESRSHPNLPPGLVGKHDIIFGNIEEIRDFHRDIFLK 60
+ ELLQTER+YV+DL ++VFL+ R P L + IF NIEEI + H++ FL+
Sbjct: 2 IQELLQTERSYVRDLKILVEVFLKPLRESPILSE---EEIKTIFSNIEEILELHQE-FLE 57
Query: 61 ELEK---YENMPEDLGHCFVTW 79
ELE+ + +G F+ +
Sbjct: 58 ELEERLEEWPDIQRIGDIFLKF 79
>gnl|CDD|214619 smart00325, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases. Guanine nucleotide
exchange factor for Rho/Rac/Cdc42-like GTPases Also
called Dbl-homologous (DH) domain. It appears that PH
domains invariably occur C-terminal to RhoGEF/DH
domains. Improved coverage.
Length = 180
Score = 72.7 bits (179), Expect = 9e-18
Identities = 33/81 (40%), Positives = 47/81 (58%), Gaps = 7/81 (8%)
Query: 3 ELLQTERTYVKDLDTCIKVFLQESRSHPNLPPGLVGKHDIIFGNIEEIRDFHRDIFLKEL 62
ELLQTER YV+DL ++VFL+ + L + + +FGNIEEI +FHR FL EL
Sbjct: 4 ELLQTERNYVRDLKLLVEVFLKPLKKELKLLS--PNELETLFGNIEEIYEFHR-DFLDEL 60
Query: 63 EKY----ENMPEDLGHCFVTW 79
E+ ++ E +G F+
Sbjct: 61 EERIEEWDDSVERIGDVFLKL 81
>gnl|CDD|238091 cd00160, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous
(DH) domain. It appears that PH domains invariably
occur C-terminal to RhoGEF/DH domains.
Length = 181
Score = 69.6 bits (171), Expect = 1e-16
Identities = 35/84 (41%), Positives = 48/84 (57%), Gaps = 9/84 (10%)
Query: 1 MAELLQTERTYVKDLDTCIKVFLQE-SRSHPNLPPGLVGKHDIIFGNIEEIRDFHRDIFL 59
+ ELLQTER YV+DL ++VFL+ + L P V +++FGNIEEI +FHR IFL
Sbjct: 5 IKELLQTERNYVRDLKLLVEVFLKPLDKELLPLSPEEV---ELLFGNIEEIYEFHR-IFL 60
Query: 60 KELEKYENM----PEDLGHCFVTW 79
K LE+ +G F+
Sbjct: 61 KSLEERVEEWDKSGPRIGDVFLKL 84
>gnl|CDD|234595 PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional.
Length = 257
Score = 32.4 bits (75), Expect = 0.011
Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 5/30 (16%)
Query: 34 PGLVGKHDIIFGNIEEI-----RDFHRDIF 58
+VG+H++IF E R F
Sbjct: 201 GDIVGEHEVIFAGDGERIEIRHDATSRMSF 230
>gnl|CDD|218479 pfam05173, DapB_C, Dihydrodipicolinate reductase, C-terminus.
Dihydrodipicolinate reductase (DapB) reduces the
alpha,beta-unsaturated cyclic imine,
dihydro-dipicolinate. This reaction is the second
committed step in the biosynthesis of L-lysine and its
precursor meso-diaminopimelate, which are critical for
both protein and cell wall biosynthesis. The C-terminal
domain of DapB has been proposed to be the substrate-
binding domain.
Length = 137
Score = 29.8 bits (68), Expect = 0.100
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 34 PGLVGKHDIIFGNIEEI-----RDFHRDIF 58
G+VG+H++IFG E R+IF
Sbjct: 82 GGVVGEHEVIFGGDGERIEITHDAHSREIF 111
>gnl|CDD|223366 COG0289, DapB, Dihydrodipicolinate reductase [Amino acid transport
and metabolism].
Length = 266
Score = 28.4 bits (64), Expect = 0.31
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 5/30 (16%)
Query: 34 PGLVGKHDIIFGNIEEI-----RDFHRDIF 58
+VG+H++IF E R RD F
Sbjct: 210 GDIVGEHEVIFAGEGERIEIRHRATSRDSF 239
>gnl|CDD|181207 PRK08043, PRK08043, bifunctional acyl-[acyl carrier protein]
synthetase/2-acylglycerophosphoethanolamine
acyltransferase; Validated.
Length = 718
Score = 27.8 bits (62), Expect = 0.76
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 16 DTCIKVFLQESRSHPNLPPGLVGKHDIIFGNIEEIR---DFH-RDIFLKEL 62
D + +F S HP G+V H + N+E+I+ DF D F+ L
Sbjct: 366 DAALILFTSGSEGHPK---GVVHSHKSLLANVEQIKTIADFTPNDRFMSAL 413
>gnl|CDD|133168 cd05036, PTKc_ALK_LTK, Catalytic domain of the Protein Tyrosine
Kinases, Anaplastic Lymphoma Kinase and Leukocyte
Tyrosine Kinase. Protein Tyrosine Kinase (PTK) family;
Anaplastic Lymphoma Kinase (ALK) and Leukocyte Tyrosine
(tyr) Kinase (LTK); catalytic (c) domain. The PTKc
family is part of a larger superfamily that includes the
catalytic domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to tyr
residues in protein substrates. ALK and LTK are orphan
receptor tyr kinases (RTKs) whose ligands are not yet
well-defined. RTKs contain an extracellular
ligand-binding domain, a transmembrane region, and an
intracellular tyr kinase domain. They are usually
activated through ligand binding, which causes
dimerization and autophosphorylation of the
intracellular tyr kinase catalytic domain. ALK appears
to play an important role in mammalian neural
development as well as visceral muscle differentiation
in Drosophila. ALK is aberrantly expressed as fusion
proteins, due to chromosomal translocations, in about
60% of anaplastic large cell lymphomas (ALCLs). ALK
fusion proteins are also found in rare cases of diffuse
large B cell lymphomas (DLBCLs). LTK is mainly expressed
in B lymphocytes and neuronal tissues. It is important
in cell proliferation and survival. Transgenic mice
expressing TLK display retarded growth and high
mortality rate. In addition, a polymorphism in mouse and
human LTK is implicated in the pathogenesis of systemic
lupus erythematosus.
Length = 277
Score = 27.0 bits (60), Expect = 1.3
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 8/47 (17%)
Query: 19 IKVFLQESRSHPNLPPGLVGKH------DIIFG--NIEEIRDFHRDI 57
+K FL+E+R P P L K D+ G +EE HRDI
Sbjct: 96 LKSFLRENRPRPERPSSLTMKDLLFCARDVAKGCKYLEENHFIHRDI 142
>gnl|CDD|130046 TIGR00973, leuA_bact, 2-isopropylmalate synthase, bacterial type.
This is the first enzyme of leucine biosynthesis. A
larger family of homologous proteins includes
homocitrate synthase, distinct lineages of
2-isopropylmalate synthase, several distinct,
uncharacterized, orthologous sets in the Archaea, and
other related enzymes. This model describes a family of
2-isopropylmalate synthases found primarily in Bacteria.
The homologous families in the Archaea may represent
isozymes and/or related enzymes [Amino acid
biosynthesis, Pyruvate family].
Length = 494
Score = 26.6 bits (59), Expect = 1.4
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 54 HRDIFLKELEKYENM-PEDLG 73
H+D LK E YE M PED+G
Sbjct: 297 HQDGVLKNKETYEIMSPEDIG 317
>gnl|CDD|238143 cd00232, HemeO, Heme oxygenase catalyzes the rate limiting step
in the degradation of heme to bilirubin, it is
essential for recycling of iron from heme. Heme is used
as a substrate and cofactor for its own degradation to
biliverdin, iron, and carbon monoxide. This family
includes bacterial HO, as well as the mammalian
isoforms HO-1, and HO-2. Heme oxygenases play key roles
in heme homeostasis, oxidative stress response,
photosynthetic pigment formation in cyanobacteria,
cellular signaling in mammals, and iron acquisition
from host heme by bacterial pathogens.
Length = 203
Score = 25.7 bits (57), Expect = 3.0
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 49 EIRDFHRDIFLKELEKYENMPEDLGHCFVTWWWFVRP 85
+ + ++L ELE+ + +DL + + W P
Sbjct: 58 KDNPYLAPLYLPELERAAALEKDLAYLGGSDWRVREP 94
>gnl|CDD|235371 PRK05246, PRK05246, glutathione synthetase; Provisional.
Length = 316
Score = 25.8 bits (58), Expect = 3.3
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 9/33 (27%)
Query: 33 PPGLVGKHDIIFGNIEEIRDF---HRDIFLKEL 62
PP LV + + EIR F H DI LK L
Sbjct: 136 PPTLVTR------DKAEIRAFRAEHGDIILKPL 162
>gnl|CDD|202486 pfam02955, GSH-S_ATP, Prokaryotic glutathione synthetase,
ATP-grasp domain.
Length = 173
Score = 25.6 bits (57), Expect = 3.4
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 9/36 (25%)
Query: 33 PPGLVGKHDIIFGNIEEIRDF---HRDIFLKELEKY 65
PP LV + + EEIR F H DI LK L+
Sbjct: 13 PPTLVTR------DKEEIRAFLEEHGDIILKPLDGM 42
>gnl|CDD|215871 pfam00346, Complex1_49kDa, Respiratory-chain NADH dehydrogenase,
49 Kd subunit.
Length = 272
Score = 25.4 bits (56), Expect = 3.8
Identities = 11/42 (26%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 27 RSHPNLPPGLVGKHDIIFGNIEEIRDFHRDIFLKELEKYENM 68
R H D+ +G ++++ +F D FLK +++YE +
Sbjct: 29 RMHAAYFRIGGVAQDLPYGWMDDLLEF-CDYFLKRVDEYEEL 69
>gnl|CDD|218664 pfam05626, DUF790, Protein of unknown function (DUF790). This
family consists of several hypothetical archaeal
proteins of unknown function.
Length = 375
Score = 25.4 bits (56), Expect = 4.5
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 2 AELLQTERTYVKDLDTCIKVFLQESRSH 29
AE++Q +R Y +LD+ I + L E+
Sbjct: 234 AEIVQGKRIYSFELDSEISLLLPETEES 261
>gnl|CDD|215404 PLN02758, PLN02758, oxidoreductase, 2OG-Fe(II) oxygenase family
protein.
Length = 361
Score = 24.8 bits (54), Expect = 6.4
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 37 VGKHDIIFGNIEEIRDFHRDIF---LKELEKYENMP---EDLGHCFV 77
V H I +EEI R+ F L+E +KY P + G FV
Sbjct: 88 VINHGIELELLEEIEKVAREFFMLPLEEKQKYPMAPGTVQGYGQAFV 134
>gnl|CDD|235484 PRK05469, PRK05469, peptidase T; Provisional.
Length = 408
Score = 24.7 bits (55), Expect = 7.0
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 14/48 (29%)
Query: 43 IFGNIEE------IRDFHRDIF------LKELEKYENMPEDLGHCFVT 78
I G +EE IRDF R+ F ++E+ + + G V
Sbjct: 267 IKGTVEEAELSYIIRDFDREGFEARKALMQEIA--KKVNAKYGEGRVE 312
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
0.324 0.143 0.473
Gapped
Lambda K H
0.267 0.0734 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,766,196
Number of extensions: 410642
Number of successful extensions: 413
Number of sequences better than 10.0: 1
Number of HSP's gapped: 407
Number of HSP's successfully gapped: 27
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.2 bits)