RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031803
(152 letters)
>gnl|CDD|185405 PTZ00029, PTZ00029, 60S ribosomal protein L10a; Provisional.
Length = 216
Score = 217 bits (554), Expect = 6e-73
Identities = 98/133 (73%), Positives = 120/133 (90%), Gaps = 1/133 (0%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
MSKL S+ALR+A++ I++ S+E KKR F ET+ELQIGLK+YD QKDKRFSGSVKLP++P+
Sbjct: 1 MSKLSSEALRKAIAEILEGSEE-KKRKFVETVELQIGLKDYDTQKDKRFSGSVKLPNVPK 59
Query: 61 PKMKVCMLGDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQI 120
P +KVC+LGDA H +EA+K+GLD+MD+EGLKK NKNKKLVKKLAKKY AFLAS+S++ QI
Sbjct: 60 PNLKVCVLGDAVHCDEAKKLGLDFMDIEGLKKFNKNKKLVKKLAKKYDAFLASQSLLPQI 119
Query: 121 PRLLGPGLNKAGK 133
PRLLGPGLNKAGK
Sbjct: 120 PRLLGPGLNKAGK 132
>gnl|CDD|140252 PTZ00225, PTZ00225, 60S ribosomal protein L10a; Provisional.
Length = 214
Score = 142 bits (359), Expect = 1e-43
Identities = 74/133 (55%), Positives = 100/133 (75%), Gaps = 3/133 (2%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
MSK+ L EA+ ++++ KE R F E+I+LQ+ LKNYDPQKDKRFSGS+KLP++ R
Sbjct: 1 MSKIPPQTLSEAIQAVLKVDKE---RKFKESIDLQVNLKNYDPQKDKRFSGSLKLPNVCR 57
Query: 61 PKMKVCMLGDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQI 120
P+M VC+L D H + A+K G+ M+ E LKKLNKNKKLVKK+ +Y AFL SES+IK +
Sbjct: 58 PRMTVCLLCDLVHEDIAKKEGVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTV 117
Query: 121 PRLLGPGLNKAGK 133
PRL+GP +++ GK
Sbjct: 118 PRLVGPHMHRMGK 130
>gnl|CDD|238235 cd00403, Ribosomal_L1, Ribosomal protein L1. The L1 protein,
located near the E-site of the ribosome, forms part of
the L1 stalk along with 23S rRNA. In bacteria and
archaea, L1 functions both as a ribosomal protein that
binds rRNA, and as a translation repressor that binds
its own mRNA. Like several other large ribosomal
subunit proteins, L1 displays RNA chaperone activity.
L1 is one of the largest ribosomal proteins. It is
composed of two domains that cycle between open and
closed conformations via a hinge motion. The RNA-binding
site of L1 is highly conserved, with both mRNA and rRNA
binding the same binding site.
Length = 208
Score = 135 bits (343), Expect = 5e-41
Identities = 55/131 (41%), Positives = 76/131 (58%), Gaps = 4/131 (3%)
Query: 9 LREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCML 68
L EA+ ++ + S KKR F ET+ELQI LK D +KD+R G+V LPH +KVC+
Sbjct: 1 LEEAIKALKKTSV--KKRKFDETVELQINLKKDDRKKDQRIRGTVILPHGLGKDVKVCVF 58
Query: 69 GDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGL 128
+ +EA+ G D + E LKK KN + KKLAK + FLA ++ +P+LLG L
Sbjct: 59 AKDEQAKEAKAAGADVVGGEDLKKKIKNGEA-KKLAKDFDLFLADPRIMMLLPKLLGKVL 117
Query: 129 NKAGKKVPYPC 139
G K+P P
Sbjct: 118 GPRG-KMPNPK 127
>gnl|CDD|216061 pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10e family. This
family includes prokaryotic L1 and eukaryotic L10.
Length = 200
Score = 124 bits (314), Expect = 9e-37
Identities = 49/124 (39%), Positives = 68/124 (54%), Gaps = 4/124 (3%)
Query: 17 VQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEE 76
V+ K+T KR F ET+ELQI LK +KD+ G+V LPH +KVC++ +
Sbjct: 1 VKALKKTAKRKFDETVELQINLKKDPRKKDQNVRGTVVLPHGLGKDVKVCVIAKDPEAKA 60
Query: 77 AEKI--GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKK 134
E G D + E LK+ K KK +KLAK + FLA ++ +P+LLG L G K
Sbjct: 61 KEAKDAGADVVGGEDLKEKYKIKKG-RKLAKDFDVFLADPDIMPLLPKLLGKVLGPRG-K 118
Query: 135 VPYP 138
+P P
Sbjct: 119 MPNP 122
>gnl|CDD|223159 COG0081, RplA, Ribosomal protein L1 [Translation, ribosomal
structure and biogenesis].
Length = 228
Score = 100 bits (252), Expect = 3e-27
Identities = 44/134 (32%), Positives = 68/134 (50%), Gaps = 8/134 (5%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIP 59
S+ ++ V+ KET KR F ET+E+ + LK DP+K D+R GSV LP+
Sbjct: 11 ASEKVDRNKLYSLEEAVKLLKETSKRKFDETVEVAVNLK-VDPRKPDQRVRGSVVLPNGT 69
Query: 60 RPKMKVCMLGDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQ 119
++V + D + EEA+ G DY+ E L +L KN + AK + F+A+ ++
Sbjct: 70 GKTVRVAVFADGEKAEEAKAAGADYVGGEDLIELIKNGR-----AKDFDVFIATPDMMPL 124
Query: 120 IPRLLGPGLNKAGK 133
+ LG L G
Sbjct: 125 V-GKLGKVLGPRGL 137
>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed.
Length = 215
Score = 89.1 bits (222), Expect = 9e-23
Identities = 42/129 (32%), Positives = 73/129 (56%), Gaps = 5/129 (3%)
Query: 7 DALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKV 65
+ + EAV ++ + KRNFT++++L + LK+ D +K + R V LPH ++K+
Sbjct: 5 EKIEEAVKEALEEAP---KRNFTQSVDLIVNLKDIDLKKPENRIDEEVVLPHGRGKEVKI 61
Query: 66 CMLGDAQHVEEAEKIGLDY-MDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLL 124
++ + +A++ G DY + E L++L +K+ KKLA +Y F+A ++ I R L
Sbjct: 62 AVIAKGELALQAKEAGADYVITREELEELGGDKRAAKKLANEYDFFIAEADLMPLIGRYL 121
Query: 125 GPGLNKAGK 133
GP L GK
Sbjct: 122 GPVLGPRGK 130
>gnl|CDD|211630 TIGR01169, rplA_bact, ribosomal protein L1,
bacterial/chloroplast. This model describes bacterial
(and chloroplast) ribosomal protein L1. The apparent
mitochondrial L1 is sufficiently diverged to be the
subject of a separate model [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 227
Score = 38.0 bits (89), Expect = 7e-04
Identities = 31/87 (35%), Positives = 43/87 (49%), Gaps = 10/87 (11%)
Query: 8 ALREAVSSIVQYS--------KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHI 58
A RE V YS KET F ET+E+ I L DP+K D++ GSV LPH
Sbjct: 8 AAREKVDRNKLYSLDEAIDLLKETATAKFDETVEVAIRL-GIDPRKSDQQVRGSVVLPHG 66
Query: 59 PRPKMKVCMLGDAQHVEEAEKIGLDYM 85
++V + + +EA+ G DY+
Sbjct: 67 TGKTVRVAVFAKGEKAKEAKAAGADYV 93
>gnl|CDD|180071 PRK05424, rplA, 50S ribosomal protein L1; Validated.
Length = 230
Score = 36.6 bits (86), Expect = 0.002
Identities = 25/78 (32%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 8 ALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVC 66
+L EA++ + KET F ET+++ + L DP+K D++ G+V LPH ++V
Sbjct: 21 SLEEAIALV----KETATAKFDETVDVAVNL-GVDPRKADQQVRGAVVLPHGTGKTVRVA 75
Query: 67 MLGDAQHVEEAEKIGLDY 84
+ + EEA+ G D
Sbjct: 76 VFAKGEKAEEAKAAGADI 93
>gnl|CDD|188631 cd00439, Transaldolase, Transaldolase. Transaldolase. Enzymes
found in the non-oxidative branch of the pentose
phosphate pathway, that catalyze the reversible transfer
of a dihydroxyacetone group from fructose-6-phosphate to
erythrose-4-phosphate yielding sedoheptulose-7-phosphate
and glyceraldehyde-3-phosphate. They are members of the
class I aldolases, who are characterized by using a
Schiff-base mechanism for stabilization of the reaction
intermediates.
Length = 252
Score = 34.6 bits (79), Expect = 0.012
Identities = 17/57 (29%), Positives = 25/57 (43%)
Query: 70 DAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGP 126
D + E+IGLD G+ ++ KL K+ KK AS S + L+G
Sbjct: 172 DTLMDKMLEQIGLDLRGKAGVAQVTLAYKLYKQKFKKQRVLWASFSDTLYVAPLIGC 228
>gnl|CDD|177051 CHL00129, rpl1, ribosomal protein L1; Reviewed.
Length = 229
Score = 33.1 bits (76), Expect = 0.031
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQ-KDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KET F ET E I L N DP+ D++ +V LP +++ +L + + + EA+
Sbjct: 30 KETATAKFIETAEAHISL-NIDPKYADQQLRTTVTLPKGTGKTIRIAVLTNEEKITEAKN 88
Query: 80 IGLD 83
G D
Sbjct: 89 AGAD 92
>gnl|CDD|131701 TIGR02653, Lon_rel_chp, conserved hypothetical protein. This model
describes a protein family of unknown function, about
690 residues in length, in which some members show
C-terminal sequence similarity to pfam05362, which is
the Lon protease C-terminal proteolytic domain, from
MEROPS family S16. However, the annotated catalytic
sites of E. coli Lon protease are not conserved in
members of this family. Members have a motif
GP[RK][GS]TGKS, similar to the ATP-binding P-loop motif
GxxGxGK[ST] [Hypothetical proteins, Conserved].
Length = 675
Score = 33.7 bits (77), Expect = 0.031
Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 14/89 (15%)
Query: 13 VSSIVQYSKETKKRNFTETIELQIGLKNYDPQKD-----KRFSGSVKLPH----IPRPKM 63
V + +Y +E +KR+F + I+ L N Q+D K SG +KL + + +
Sbjct: 374 VDYLAEYMREMRKRSFADAIDRFFKLGNNLNQRDVIAVRKTVSGLLKLLYPDGEYTKDDV 433
Query: 64 KVC----MLGDAQHVEEAEKIG-LDYMDV 87
+ C M G + E+ +K+G ++ DV
Sbjct: 434 RECLTYAMEGRRRVKEQLKKLGGFEFFDV 462
>gnl|CDD|180270 PRK05809, PRK05809, 3-hydroxybutyryl-CoA dehydratase; Validated.
Length = 260
Score = 30.5 bits (69), Expect = 0.25
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 49 FSGSVKLPHIPRPKMKVCML--GDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKK 106
F G+ +L I P ++ GD + EEA +IGL VE K + + K L K+A
Sbjct: 143 FGGTQRLARIVGPGKAKELIYTGDMINAEEALRIGLVNKVVEPEKLMEEAKALANKIAAN 202
>gnl|CDD|201191 pfam00378, ECH, Enoyl-CoA hydratase/isomerase family. This family
contains a diverse set of enzymes including: Enoyl-CoA
hydratase. Napthoate synthase. Carnitate racemase.
3-hydoxybutyryl-CoA dehydratase. Dodecanoyl-CoA
delta-isomerase.
Length = 245
Score = 28.4 bits (64), Expect = 1.3
Identities = 21/125 (16%), Positives = 42/125 (33%), Gaps = 39/125 (31%)
Query: 33 ELQIGLKNYDPQKDKRFSGSVKLPH-IPRPK-MKVCMLGDAQHVEEAEKIGL-------- 82
E+++G+ G+ +LP I +++ + G +EA K+GL
Sbjct: 127 EVKLGI--IPG-----AGGTQRLPRIIGVSAALEMLLTGRRIRAQEALKMGLVDKVVPEE 179
Query: 83 DYMD--VEGLKKLNKNKKLVKKLAKK--------------------YHAFLASESVIKQI 120
++ +E ++L L K Y A +++ V + I
Sbjct: 180 QLVEEAIELAQRLADKPPLALAALKAAMRAALEDALPEVRAQALRLYPAPFSTDDVKEGI 239
Query: 121 PRLLG 125
L
Sbjct: 240 QAFLE 244
>gnl|CDD|213232 cd03265, ABC_DrrA, Daunorubicin/doxorubicin resistance ATP-binding
protein. DrrA is the ATP-binding protein component of a
bacterial exporter complex that confers resistance to
the antibiotics daunorubicin and doxorubicin. In
addition to DrrA, the complex includes an integral
membrane protein called DrrB. DrrA belongs to the ABC
family of transporters and shares sequence and
functional similarities with a protein found in cancer
cells called P-glycoprotein. ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region in
addition to the Walker A motif/P-loop and Walker B motif
commonly found in a number of ATP- and GTP-binding and
hydrolyzing proteins.
Length = 220
Score = 28.1 bits (63), Expect = 1.7
Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 7/39 (17%)
Query: 100 VKKLAKKYHAFLASESVIKQIPR-----LLGPGLNKAGK 133
V+ L KKY F A V ++ R LLGP N AGK
Sbjct: 3 VENLVKKYGDFEAVRGVSFRVRRGEIFGLLGP--NGAGK 39
>gnl|CDD|188659 cd07440, RGS, Regulator of G protein signaling (RGS) domain
superfamily. The RGS domain is an essential part of the
Regulator of G-protein Signaling (RGS) protein family, a
diverse group of multifunctional proteins that regulate
cellular signaling events downstream of G-protein
coupled receptors (GPCRs). RGS proteins play critical
regulatory roles as GTPase activating proteins (GAPs) of
the heterotrimeric G-protein G-alpha-subunits. While
inactive, G-alpha-subunits bind GDP, which is released
and replaced by GTP upon agonist activation. GTP binding
leads to dissociation of the alpha-subunit and the
beta-gamma-dimer, allowing them to interact with
effectors molecules and propagate signaling cascades
associated with cellular growth, survival, migration,
and invasion. Deactivation of the G-protein signaling
controlled by the RGS domain accelerates GTPase activity
of the alpha subunit by hydrolysis of GTP to GDP, which
results in the reassociation of the alpha-subunit with
the beta-gamma-dimer and thereby inhibition of
downstream activity. As a major G-protein regulator, RGS
domain containing proteins are involved in many crucial
cellular processes such as regulation of intracellular
trafficking, glial differentiation, embryonic axis
formation, skeletal and muscle development, and cell
migration during early embryogenesis. RGS proteins are
also involved in apoptosis and cell proliferation, as
well as modulation of cardiac development. Several RGS
proteins can fine-tune immune responses, while others
play important roles in neuronal signals modulation.
Some RGS proteins are principal elements needed for
proper vision.
Length = 113
Score = 27.4 bits (61), Expect = 1.8
Identities = 10/39 (25%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 84 YMDVEGLKKLNKNKKLVKKLAKK-YHAFLASESVIKQIP 121
++ VE KK + + +K AK+ Y +++ ++ K+I
Sbjct: 26 WLAVEKFKKTTSSDEELKSKAKEIYDKYISKDA-PKEIN 63
>gnl|CDD|143320 cd07696, IgC_CH3, CH3 domain (third constant Ig domain of the
heavy chain) in immunoglobulin. IgC_CH3: The third
immunoglobulin constant domain (IgC) of immunoglobulin
(Ig) heavy chains. This domain is found on the Fc
fragment. The basic structure of Ig molecules is a
tetramer of two light chains and two heavy chains
linked by disulfide bonds. There are two types of light
chains: kappa and lambda; each composed of a constant
domain and a variable domain. There are five types of
heavy chains: alpha, delta, epsilon, gamma and mu, all
consisting of a variable domain (VH) and three (in
alpha, delta and gamma) or four (in epsilon and mu)
constant domains (CH1 to CH4). Ig molecules are modular
proteins, in which the variable and constant domains
have clear, conserved sequence patterns.
Length = 96
Score = 26.6 bits (59), Expect = 2.9
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 2/55 (3%)
Query: 10 REAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
E V + +Q + + T L + ++ F V P +P P K
Sbjct: 41 GEPVKASIQPPESHNNATLSVTSTLNVSTDDWI--SGDTFQCKVTHPDLPTPLRK 93
>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function. This domain
family is found in eukaryotes, and is typically between
96 and 116 amino acids in length.
Length = 106
Score = 25.7 bits (57), Expect = 5.5
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 1/59 (1%)
Query: 82 LDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKKVPYPCY 140
+DY+D KK K + KKY S++ I L+ P L A K+PY
Sbjct: 20 IDYIDKLKKDPNIDKKKFKKIIFKKYGLIFILPSLVPLIG-LIIPILFSANVKIPYILP 77
>gnl|CDD|223202 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 26.8 bits (60), Expect = 5.8
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 65 VCMLGDAQH-VEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKY 107
Q ++ A ++ LDY+D E L+ L + L+ L Y
Sbjct: 216 DSKKDSDQELLKNAPEL-LDYLDEESLEHLEELLALLDALGISY 258
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 26.6 bits (59), Expect = 6.4
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 3/29 (10%)
Query: 83 DYMDVEGLKK---LNKNKKLVKKLAKKYH 108
+Y D G+ K ++ KK +KL+KKYH
Sbjct: 5 EYYDRLGVSKDASQDEIKKAYRKLSKKYH 33
>gnl|CDD|216023 pfam00615, RGS, Regulator of G protein signaling domain. RGS
family members are GTPase-activating proteins for
heterotrimeric G-protein alpha-subunits.
Length = 117
Score = 25.6 bits (57), Expect = 7.1
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 84 YMDVEGLKKLNKNKKLVKKLAKKYHAFLASES 115
++ E KK +++ +KK + Y+ FLA +S
Sbjct: 31 WLACEEFKKAKSDEERLKKAREIYNKFLAPDS 62
>gnl|CDD|188633 cd00502, DHQase_I, Type I 3-dehydroquinase, (3-dehydroquinate
dehydratase or DHQase). Type I 3-dehydroquinase,
(3-dehydroquinate dehydratase or DHQase). Catalyzes the
cis-dehydration of 3-dehydroquinate via a covalent imine
intermediate to produce dehydroshikimate. Dehydroquinase
is the third enzyme in the shikimate pathway, which is
involved in the biosynthesis of aromatic amino acids.
Type I DHQase exists as a homodimer. Type II
3-dehydroquinase also catalyzes the same overall
reaction, but is unrelated in terms of sequence and
structure, and utilizes a completely different reaction
mechanism.
Length = 225
Score = 26.1 bits (58), Expect = 7.4
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 9/44 (20%)
Query: 74 VEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKK-------YHAF 110
+EEA K+G DY+D+E ++L+ K YH F
Sbjct: 82 LEEALKLGPDYVDIE--LDSALLEELINSRKKGNTKIIGSYHDF 123
>gnl|CDD|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 26.2 bits (58), Expect = 7.6
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 83 DYMDVEGLKK---LNKNKKLVKKLAKKYH 108
DY +V G+ K ++ KK +KL+KKYH
Sbjct: 5 DYYEVLGVSKSASKDEIKKAYRKLSKKYH 33
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 26.1 bits (58), Expect = 7.8
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 75 EEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQ 119
+ E + +D DV+ L L K+ LV A + ++ IK
Sbjct: 47 GKVEALQVDAADVDALVALIKDFDLVINAAPPFVDLTILKACIKT 91
>gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase
subunit beta/beta'; Provisional.
Length = 2836
Score = 26.5 bits (58), Expect = 9.0
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 79 KIGLDYMDVEGLKKLNKNKKLVKKLAKKYH 108
++ D MDVEG L N ++ +LAKK +
Sbjct: 270 RLPFDLMDVEGNVLLKANVRITSRLAKKLY 299
>gnl|CDD|224781 COG1868, FliM, Flagellar motor switch protein [Cell motility and
secretion].
Length = 332
Score = 26.1 bits (58), Expect = 9.7
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 10/51 (19%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSG 51
+S+ + DAL VS V+ KE +R K YD ++ RFS
Sbjct: 5 LSQEEIDALLSGVSEGVEELKEEDERKV----------KPYDFKRPDRFSK 45
>gnl|CDD|239046 cd02131, PA_hNAALADL2_like, PA_hNAALADL2_like: Protease-associated
domain containing proteins like human N-acetylated
alpha-linked acidic dipeptidase-like 2 protein
(hNAALADL2). This group contains various PA
domain-containing proteins similar to hNAALADL2. The
function of hNAALADL2 is unknown. This gene has been
mapped to a chromosomal region associated with Cornelia
de Lange syndrome. The significance of the PA domain to
hNAALADL2 has not been ascertained. It may be a
protein-protein interaction domain. At peptidase active
sites, the PA domain may participate in substrate
binding and/or promoting conformational changes, which
influence the stability and accessibility of the site to
substrate.
Length = 153
Score = 25.7 bits (56), Expect = 9.9
Identities = 8/29 (27%), Positives = 17/29 (58%)
Query: 76 EAEKIGLDYMDVEGLKKLNKNKKLVKKLA 104
+AE + + Y VE L+++ N + ++A
Sbjct: 16 QAEVVDVQYGSVEDLRRIRDNMNVTNQIA 44
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
0.314 0.133 0.374
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,444,113
Number of extensions: 663793
Number of successful extensions: 684
Number of sequences better than 10.0: 1
Number of HSP's gapped: 673
Number of HSP's successfully gapped: 54
Length of query: 152
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 64
Effective length of database: 7,034,450
Effective search space: 450204800
Effective search space used: 450204800
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: 42 (22.0 bits)
S2: 55 (24.9 bits)