RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 027855
(217 letters)
>gnl|CDD|185405 PTZ00029, PTZ00029, 60S ribosomal protein L10a; Provisional.
Length = 216
Score = 344 bits (885), Expect = e-122
Identities = 152/217 (70%), Positives = 192/217 (88%), Gaps = 1/217 (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 PRLLGPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLKKVLCMGVAVGNLSMEEKQIF 180
PRLLGPGLNKAGKFPTL+TH + +E K+NE K++VKFQLKKVLC+GVAVGN+ M E+Q+
Sbjct: 120 PRLLGPGLNKAGKFPTLITHNDDIEDKINELKSSVKFQLKKVLCLGVAVGNVEMTEEQLR 179
Query: 181 QNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRIF 217
QN+ +S+NFLVSLLKKNWQN++ L++KSTMG RI+
Sbjct: 180 QNIVLSINFLVSLLKKNWQNIKTLHIKSTMGKPQRIY 216
>gnl|CDD|140252 PTZ00225, PTZ00225, 60S ribosomal protein L10a; Provisional.
Length = 214
Score = 239 bits (611), Expect = 1e-80
Identities = 125/217 (57%), Positives = 166/217 (76%), Gaps = 3/217 (1%)
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 PRLLGPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLKKVLCMGVAVGNLSMEEKQIF 180
PRL+GP +++ GKFPT+ + ESL KV E ++TVKFQLKKVLC+G VG++ M E+Q+
Sbjct: 118 PRLVGPHMHRMGKFPTVCSPSESLPDKVVELRSTVKFQLKKVLCLGTCVGHVEMTEEQLR 177
Query: 181 QNVQMSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRIF 217
QNV M++NFLVSLLKKNWQN++ Y+KSTMG RI+
Sbjct: 178 QNVVMAINFLVSLLKKNWQNLKSAYIKSTMGKPQRIY 214
>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 = 220 bits (562), Expect = 3e-73
Identities = 87/211 (41%), Positives = 124/211 (58%), Gaps = 6/211 (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 NKAGKFPTLVTHQ--ESLESKVNETKATVKFQLKKVLCMGVAVGNLSMEEKQIFQNVQMS 186
GK P T E L + E K++V+F+L K C+ V VG +SM +Q+ +N++
Sbjct: 118 GPRGKMPNPKTGTVTEDLAKAIEEAKSSVEFRLDKGGCIHVPVGKVSMSPEQLVENIEAV 177
Query: 187 VNFLVSLLK-KNWQNVRCLYLKSTMGPSNRI 216
+N LV L K QN++ +YLK+TMGPS I
Sbjct: 178 INALVKKLPSKKGQNIKSIYLKTTMGPSLPI 208
>gnl|CDD|216061 pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10e family. This
family includes prokaryotic L1 and eukaryotic L10.
Length = 200
Score = 206 bits (527), Expect = 6e-68
Identities = 76/201 (37%), Positives = 110/201 (54%), Gaps = 5/201 (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--GLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRLLGPGLNKAGKF 134
E G D + E LK+ K KK +KLAK + FLA ++ +P+LLG L GK
Sbjct: 61 KEAKDAGADVVGGEDLKEKYKIKKG-RKLAKDFDVFLADPDIMPLLPKLLGKVLGPRGKM 119
Query: 135 PTLVTH-QESLESKVNETKATVKFQLK-KVLCMGVAVGNLSMEEKQIFQNVQMSVNFLVS 192
P T + + E K+ K K C+ V VG +SM +++ +N++ +N LV
Sbjct: 120 PNPKTTVTPDVAKAIEEAKSGTVEFRKDKGGCIHVKVGKVSMSPEELVENIEAVINALVK 179
Query: 193 LLKKNWQNVRCLYLKSTMGPS 213
L K WQN++ +YLK+TMGPS
Sbjct: 180 KLPKGWQNIKSVYLKTTMGPS 200
>gnl|CDD|223159 COG0081, RplA, Ribosomal protein L1 [Translation, ribosomal
structure and biogenesis].
Length = 228
Score = 164 bits (417), Expect = 7e-51
Identities = 65/222 (29%), Positives = 113/222 (50%), Gaps = 13/222 (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 IPRLLGPGLNKAGKFPTLV--THQESLESKVNETKA-TVKFQLKKVLCMGVAVGNLSMEE 176
+ LG L G P T + + V E K TV+F+ K + V +G +S ++
Sbjct: 125 V-GKLGKVLGPRGLMPNPKTGTVTDDVAKAVEELKKGTVEFRADKAGVIHVPIGKVSFDD 183
Query: 177 KQIFQNVQMSVNFLVSLLKKN--WQNVRCLYLKSTMGPSNRI 216
+++ +N++ +N +V Q ++ +Y+ +TMGP ++
Sbjct: 184 EKLAENIEALLNAIVKAKPAGAKGQYIKSVYVSTTMGPGVKV 225
>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed.
Length = 215
Score = 138 bits (351), Expect = 4e-41
Identities = 66/212 (31%), Positives = 118/212 (55%), Gaps = 5/212 (2%)
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 GPGLNKAGKFPTLVTHQESLESKVNETKATVKFQLKKVLCMGVAVGNLSMEEKQIFQNVQ 184
GP L GK PT + ++ V K TV+ + K V VG M +++ +N+
Sbjct: 122 GPVLGPRGKMPTPLPPNADIKPLVERLKNTVRIRTKDQPTFHVRVGTEDMSPEELAENID 181
Query: 185 MSVNFLVSLLKKNWQNVRCLYLKSTMGPSNRI 216
+N + S L+K QN++ +Y+K+TMGP+ ++
Sbjct: 182 AVLNRIESKLEKGRQNIKSVYVKTTMGPAVKV 213
>gnl|CDD|180071 PRK05424, rplA, 50S ribosomal protein L1; Validated.
Length = 230
Score = 58.2 bits (142), Expect = 2e-10
Identities = 61/227 (26%), Positives = 108/227 (47%), Gaps = 42/227 (18%)
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 MLGDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASESVIKQIPRL--- 123
+ + EEA+ G D + E L + K L + +A+ ++ ++ +L
Sbjct: 76 VFAKGEKAEEAKAAGADIVGGEDLIEKIKGGWL------DFDVVIATPDMMGKVGKLGRI 129
Query: 124 LGP-GL--N-KAGKFPTLVTHQESLESKVNETKA-TVKFQLKKVLCMGVAVGNLSMEEKQ 178
LGP GL N K G VT + V E KA V+F++ K + +G +S + ++
Sbjct: 130 LGPRGLMPNPKTG----TVTM--DVAKAVKEAKAGKVEFRVDKAGIIHAPIGKVSFDAEK 183
Query: 179 IFQNVQMSVNFLVSLLKKN---------WQNVRCLYLKSTMGPSNRI 216
+ +N++ L+ +KK ++V L STMGP ++
Sbjct: 184 LKENLKA----LIDAIKKAKPATAKGTYIKSV---SLSSTMGPGVKV 223
>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 = 57.3 bits (139), Expect = 4e-10
Identities = 64/229 (27%), Positives = 102/229 (44%), Gaps = 40/229 (17%)
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 PRPKMKVCMLGDAQHVEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKKYHAFLASE---S 115
++V + + +EA+ G DY V + K +KK + +A+
Sbjct: 67 TGKTVRVAVFAKGEKAKEAKAAGADY--VGSDDLIEK----IKKGWLDFDVVIATPDMMR 120
Query: 116 VIKQIPRLLGP-GLNKAGKFPTLVTHQESLESKVNETKA-TVKFQLKKVLCMGVAVGNLS 173
V+ ++ R+LGP GL K T+ T + V K V+F+ K + +G +S
Sbjct: 121 VVGKLGRILGPRGLMPNPKTGTVTT---DVAKAVKNAKKGQVEFRADKAGNIHAPIGKVS 177
Query: 174 MEEKQIFQNVQMSVNFLVSLLKKN---------WQNVRCLYLKSTMGPS 213
+ +++ +N++ L+ +KK +N+ L STMGP
Sbjct: 178 FDSEKLKENLEA----LLDAIKKAKPSGAKGQYIKNI---ALSSTMGPG 219
>gnl|CDD|177051 CHL00129, rpl1, ribosomal protein L1; Reviewed.
Length = 229
Score = 41.1 bits (97), Expect = 1e-04
Identities = 56/210 (26%), Positives = 98/210 (46%), Gaps = 30/210 (14%)
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 IGLDYMDVEGLKKLNKNKKLVKKLAKKYHAF---LASESVIKQIPRL---LGP-GLNKAG 132
G D + + L++++ K F +A+ ++ ++ +L LGP GL +
Sbjct: 89 AGAD---------IVGSDDLIEEITKGNLDFDLLIATPDMMPKLAKLGRVLGPRGLMPSP 139
Query: 133 KFPTLVTHQESLESKVNETKA-TVKFQLKKVLCMGVAVGNLSMEEKQIFQNVQMSVNFLV 191
K T+ T L S +NE K ++++ K + V G + E+ + +N+Q
Sbjct: 140 KSGTVTT---DLASAINEFKKGKLEYRADKTGIVHVLFGKSNFTEEDLLENLQAIYE--- 193
Query: 192 SLLKKNWQNVRCLYLKS-----TMGPSNRI 216
S+ + V+ Y KS TMGPS +I
Sbjct: 194 SIEQNRPSGVKGKYWKSFYICSTMGPSIQI 223
>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 = 35.0 bits (80), Expect = 0.016
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 = 33.3 bits (76), Expect = 0.079
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|223955 COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid
metabolism].
Length = 257
Score = 30.8 bits (70), Expect = 0.36
Identities = 15/76 (19%), Positives = 36/76 (47%), Gaps = 3/76 (3%)
Query: 51 GSVKLPHI--PRPKMKVCMLGDAQHVEEAEKIGL-DYMDVEGLKKLNKNKKLVKKLAKKY 107
G+ +LP + ++ + G+ EA ++GL D + + + L + +L ++LA
Sbjct: 146 GTQRLPRLLGRGRAKELLLTGEPISAAEALELGLVDEVVPDAEELLERALELARRLAAPP 205
Query: 108 HAFLASESVIKQIPRL 123
A A++ +++
Sbjct: 206 LALAATKRLVRAALEA 221
>gnl|CDD|235544 PRK05647, purN, phosphoribosylglycinamide formyltransferase;
Reviewed.
Length = 200
Score = 30.5 bits (70), Expect = 0.48
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 13/49 (26%)
Query: 122 RLLGPGLNKA--GK-----------FPTLVTHQESLESKVNETKATVKF 157
R+LGP A G+ FP L TH+++LE+ V TV F
Sbjct: 91 RILGPTFVSAYEGRIINIHPSLLPSFPGLHTHEQALEAGVKVHGCTVHF 139
>gnl|CDD|223376 COG0299, PurN, Folate-dependent phosphoribosylglycinamide
formyltransferase PurN [Nucleotide transport and
metabolism].
Length = 200
Score = 30.2 bits (69), Expect = 0.52
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 13/49 (26%)
Query: 122 RLLGPGLNKA-------------GKFPTLVTHQESLESKVNETKATVKF 157
R+LGP FP L H+++LE+ V + TV F
Sbjct: 90 RILGPEFLSRFEGRILNIHPSLLPAFPGLHAHEQALEAGVKVSGCTVHF 138
>gnl|CDD|180270 PRK05809, PRK05809, 3-hydroxybutyryl-CoA dehydratase; Validated.
Length = 260
Score = 30.5 bits (69), Expect = 0.63
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|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 = 28.5 bits (64), Expect = 2.4
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 7/43 (16%)
Query: 100 VKKLAKKYHAFLASESVIKQIPR-----LLGPGLNKAGKFPTL 137
V+ L KKY F A V ++ R LLGP N AGK T+
Sbjct: 3 VENLVKKYGDFEAVRGVSFRVRRGEIFGLLGP--NGAGKTTTI 43
>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 = 2.6
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|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 = 4.5
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|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 = 27.3 bits (61), Expect = 5.0
Identities = 23/111 (20%), Positives = 38/111 (34%), Gaps = 27/111 (24%)
Query: 74 VEEAEKIGLDYMDVEGLKKLNKNKKLVKKLAKK-------YHAF--LASESVIKQIPRLL 124
+EEA K+G DY+D+E ++L+ K YH F S+ +
Sbjct: 82 LEEALKLGPDYVDIE--LDSALLEELINSRKKGNTKIIGSYHDFSGTPSDEELVSR---- 135
Query: 125 GPGLNKAGKFPT----LVTHQESLE--SKVNETKATVKFQLKK---VLCMG 166
L K + S+E ++ + VK + MG
Sbjct: 136 ---LEKMAALGADIVKIAVMANSIEDNLRLLKFTRQVKNLYDIPLIAINMG 183
>gnl|CDD|236224 PRK08297, PRK08297, L-lysine aminotransferase; Provisional.
Length = 443
Score = 27.6 bits (62), Expect = 5.1
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 38 LKNYDPQKDKRFSGSVKL--PHIPRPKMKVCMLGDA-QHVEEAEKIGL 82
L N DP+K RF K P I PK++ + G+ + VE E L
Sbjct: 168 LTNTDPRKTARFP---KFDWPRIDNPKLRFPLPGEDLEEVEALEAEAL 212
>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 = 26.3 bits (58), Expect = 6.7
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|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 27.4 bits (61), Expect = 6.8
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|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 27.0 bits (60), Expect = 8.1
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 = 27.2 bits (61), Expect = 8.4
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
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
0.316 0.131 0.364
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: 10,249,280
Number of extensions: 926492
Number of successful extensions: 1098
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1076
Number of HSP's successfully gapped: 55
Length of query: 217
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 124
Effective length of database: 6,812,680
Effective search space: 844772320
Effective search space used: 844772320
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: 41 (21.6 bits)
S2: 57 (25.7 bits)