RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031726
(154 letters)
>gnl|CDD|185405 PTZ00029, PTZ00029, 60S ribosomal protein L10a; Provisional.
Length = 216
Score = 215 bits (550), Expect = 2e-72
Identities = 101/142 (71%), Positives = 124/142 (87%), Gaps = 2/142 (1%)
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 PRLLGPGLNKAGNSLPLLLTKN 142
PRLLGPGLNKAG P L+T N
Sbjct: 120 PRLLGPGLNKAGK-FPTLITHN 140
>gnl|CDD|140252 PTZ00225, PTZ00225, 60S ribosomal protein L10a; Provisional.
Length = 214
Score = 139 bits (352), Expect = 2e-42
Identities = 73/132 (55%), Positives = 99/132 (75%), Gaps = 3/132 (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 PRLLGPGLNKAG 132
PRL+GP +++ G
Sbjct: 118 PRLVGPHMHRMG 129
>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 = 133 bits (336), Expect = 6e-40
Identities = 52/124 (41%), Positives = 72/124 (58%), Gaps = 3/124 (2%)
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 NKAG 132
G
Sbjct: 118 GPRG 121
>gnl|CDD|216061 pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10e family. This
family includes prokaryotic L1 and eukaryotic L10.
Length = 200
Score = 122 bits (308), Expect = 7e-36
Identities = 46/118 (38%), Positives = 64/118 (54%), Gaps = 3/118 (2%)
Query: 17 VQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVCMLGDAQHVEE 76
V+ K+T KR F ET+ELQI LK +KD+ G+V LPH +KVC++ +
Sbjct: 1 VKALKKTAKRKFDETVELQINLKKDPRKKDQNVRGTVVLPHGLGKDVKVCVIAKDPEAKA 60
Query: 77 AEKI--GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAG 132
E G D + E LK+ K KK +KLAK + FLA ++ +P+LLG L G
Sbjct: 61 KEAKDAGADVVGGEDLKEKYKIKKG-RKLAKDFDVFLADPDIMPLLPKLLGKVLGPRG 117
>gnl|CDD|223159 COG0081, RplA, Ribosomal protein L1 [Translation, ribosomal
structure and biogenesis].
Length = 228
Score = 100 bits (251), Expect = 6e-27
Identities = 44/133 (33%), Positives = 68/133 (51%), Gaps = 8/133 (6%)
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 IPRLLGPGLNKAG 132
+ LG L G
Sbjct: 125 V-GKLGKVLGPRG 136
>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed.
Length = 215
Score = 87.6 bits (218), Expect = 4e-22
Identities = 40/124 (32%), Positives = 71/124 (57%), Gaps = 5/124 (4%)
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 GPGL 128
GP L
Sbjct: 122 GPVL 125
>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 = 6e-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 = 37.0 bits (87), Expect = 0.001
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 = 0.010
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|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 = 0.029
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|177051 CHL00129, rpl1, ribosomal protein L1; Reviewed.
Length = 229
Score = 32.7 bits (75), Expect = 0.044
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|180270 PRK05809, PRK05809, 3-hydroxybutyryl-CoA dehydratase; Validated.
Length = 260
Score = 30.5 bits (69), Expect = 0.26
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 = 1.4
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|225589 COG3047, OmpW, Outer membrane protein W [Cell envelope biogenesis,
outer membrane].
Length = 213
Score = 28.1 bits (63), Expect = 1.9
Identities = 27/78 (34%), Positives = 36/78 (46%), Gaps = 14/78 (17%)
Query: 77 AEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLN------- 129
A KIG+ + GL K+ K K L L +YH AS S + P +G GLN
Sbjct: 83 AHKIGV--GGLGGLGKIGKTKHLPPTLTAQYHFGDAS-SKFR--P-YVGAGLNYTTFFDE 136
Query: 130 KAGNS-LPLLLTKNPWSP 146
K G++ L L K+ W
Sbjct: 137 KFGSTGLSDLKLKDSWGA 154
>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 = 27.0 bits (60), Expect = 2.1
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|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 27.4 bits (61), Expect = 3.9
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|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 = 25.9 bits (57), Expect = 4.3
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|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 27.0 bits (60), Expect = 4.5
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|223202 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 26.8 bits (60), Expect = 4.7
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|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 26.5 bits (59), Expect = 6.1
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|234362 TIGR03814, Gln_ase, glutaminase A. This family describes the
enzyme glutaminase, from a larger family that includes
serine-dependent beta-lactamases and penicillin-binding
proteins. Many bacteria have two isozymes. This model is
based on selected known glutaminases and their homologs
within prokaryotes, with the exclusion of highly-derived
(long branch) and architecturally varied homologs, so as
to achieve conservative assignments. A sharp drop in
scores occurs below 250, and cutoffs are set
accordingly. The enzyme converts glutamine to glutamate,
with the release of ammonia. Members tend to be
described as glutaminase A (glsA), where B (glsB) is
unknown and may not be homologous (as in Rhizobium
etli). Some species have two isozymes that may both be
designated A (GlsA1 and GlsA2) [Energy metabolism, Amino
acids and amines].
Length = 300
Score = 26.3 bits (59), Expect = 7.1
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 125 GPGLNKAGNSL 135
P L+ AGNS+
Sbjct: 272 SPALDAAGNSV 282
>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 = 7.9
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 = 8.0
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|223112 COG0034, PurF, Glutamine phosphoribosylpyrophosphate
amidotransferase [Nucleotide transport and metabolism].
Length = 470
Score = 26.4 bits (59), Expect = 8.4
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 4/24 (16%)
Query: 73 HVEE-AEKIGLD---YMDVEGLKK 92
VEE + IG D Y+ +EGL K
Sbjct: 410 TVEEIRKAIGADSLAYLSLEGLIK 433
>gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase
subunit beta/beta'; Provisional.
Length = 2836
Score = 26.5 bits (58), Expect = 8.9
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 79 KIGLDYMDVEGLKKLNKNKKLVKKLAKKYH 108
++ D MDVEG L N ++ +LAKK +
Sbjct: 270 RLPFDLMDVEGNVLLKANVRITSRLAKKLY 299
>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 = 25.8 bits (57), Expect = 9.7
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 7/40 (17%)
Query: 100 VKKLAKKYHAFLASESVIKQIPR-----LLGPGLNKAGNS 134
V+ L KKY F A V ++ R LLGP N AG +
Sbjct: 3 VENLVKKYGDFEAVRGVSFRVRRGEIFGLLGP--NGAGKT 40
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
0.313 0.131 0.365
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: 7,540,418
Number of extensions: 671854
Number of successful extensions: 677
Number of sequences better than 10.0: 1
Number of HSP's gapped: 666
Number of HSP's successfully gapped: 55
Length of query: 154
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 65
Effective length of database: 6,990,096
Effective search space: 454356240
Effective search space used: 454356240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (24.9 bits)