RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780584|ref|YP_003064997.1| 50S ribosomal protein L28
[Candidatus Liberibacter asiaticus str. psy62]
(97 letters)
>gnl|CDD|30576 COG0227, RpmB, Ribosomal protein L28 [Translation, ribosomal
structure and biogenesis].
Length = 77
Score = 71.5 bits (175), Expect = 5e-14
Identities = 34/74 (45%), Positives = 52/74 (70%)
Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
MSR C+LT K MSGN VSH++NKT+RRFLPNL ++ S + +LR+S ALR+++
Sbjct: 1 MSRRCQLTGKGPMSGNNVSHSHNKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTID 60
Query: 61 RQGGLDRFLSNSKK 74
++G +D L+ ++
Sbjct: 61 KKGKIDAVLAKARA 74
>gnl|CDD|144429 pfam00830, Ribosomal_L28, Ribosomal L28 family. The ribosomal 28
family includes L28 proteins from bacteria and
chloroplasts. The L24 protein from yeast also contains
a region of similarity to prokaryotic L28 proteins. L24
from yeast is also found in the large ribosomal
subunit.
Length = 61
Score = 71.4 bits (176), Expect = 5e-14
Identities = 28/61 (45%), Positives = 44/61 (72%)
Query: 3 RVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQ 62
R C+LT K M GN VSH+NNKT+RR+ PNL + L S+ + + +L++S ALR+++++
Sbjct: 1 RRCQLTGKGPMFGNNVSHSNNKTKRRWKPNLQKKRLWSESLGRWVRLKVSTKALRTIDKK 60
Query: 63 G 63
G
Sbjct: 61 G 61
>gnl|CDD|38488 KOG3278, KOG3278, KOG3278, Mitochondrial/chloroplast ribosomal
protein L28 [Translation, ribosomal structure and
biogenesis].
Length = 215
Score = 47.8 bits (113), Expect = 7e-07
Identities = 22/90 (24%), Positives = 47/90 (52%), Gaps = 3/90 (3%)
Query: 9 KKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRF 68
N + NKTRR + PN+ L S I++ K +++++ LR+++++GG+D +
Sbjct: 51 SHIQYGNNVIEDGGNKTRRCWKPNVQEKRLFSYILDSKIKVKVTTHVLRTIDKEGGIDEY 110
Query: 69 LSNSKK---ENLSARMRTLRSQILKKMSEK 95
L + + L LR+++L + + +
Sbjct: 111 LLKTPSARQKMLGEMGLYLRTKVLARYAIE 140
>gnl|CDD|38489 KOG3279, KOG3279, KOG3279, Uncharacterized conserved protein
(melanoma antigen P15) [Function unknown].
Length = 283
Score = 32.7 bits (74), Expect = 0.020
Identities = 14/81 (17%), Positives = 36/81 (44%), Gaps = 1/81 (1%)
Query: 17 KVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKEN 76
K + ++PNL R + S +++ + +++ L ++ GLD ++ ++ +
Sbjct: 98 KREQTKRRVPHFWVPNLRRSVVHSHVLDCYMSVVVTERTLELIDECHGLDHYILKNRACD 157
Query: 77 L-SARMRTLRSQILKKMSEKS 96
L S L+ ++L +
Sbjct: 158 LRSKFALKLKREMLLALQNGV 178
>gnl|CDD|177037 CHL00112, rpl28, ribosomal protein L28; Provisional.
Length = 63
Score = 30.3 bits (68), Expect = 0.12
Identities = 18/61 (29%), Positives = 37/61 (60%)
Query: 1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
MS+ C+LT K +G VSH++ +T++ NL + S+ + +L+IS A+++++
Sbjct: 1 MSKKCQLTGKKANNGYTVSHSHKRTKKLQKVNLQTKKIWSNTQNRWVKLKISTKAIKTLK 60
Query: 61 R 61
+
Sbjct: 61 K 61
>gnl|CDD|36475 KOG1261, KOG1261, KOG1261, Malate synthase [Energy production and
conversion].
Length = 552
Score = 26.9 bits (59), Expect = 1.2
Identities = 10/40 (25%), Positives = 17/40 (42%)
Query: 26 RRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGL 65
LP+ ++ + S M + I+ C R V GG+
Sbjct: 301 PDHLLPDRVQVGMTSPFMRAYSKRLINTCHRRGVHAMGGM 340
>gnl|CDD|35190 COG5631, COG5631, Predicted transcription regulator, contains HTH
domain (MarR family) [Transcription].
Length = 199
Score = 26.6 bits (58), Expect = 1.4
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 1/73 (1%)
Query: 18 VSHANNKTRRRFLPNLCRITLISDIMEQKYQLR-ISKCALRSVERQGGLDRFLSNSKKEN 76
+ ++ R + L ++C++ D Y LR + K L + G + +
Sbjct: 89 LHIIRHRDRPKSLADICQMLNREDTHNITYSLRKLLKGGLITRTGSGKEVTYEVTALGHR 148
Query: 77 LSARMRTLRSQIL 89
AR +R +L
Sbjct: 149 ACARYADIREVLL 161
>gnl|CDD|112909 pfam04114, Gaa1, Gaa1-like, GPI transamidase component. GPI
(glycosyl phosphatidyl inositol) transamidase is a
multi-protein complex. Gpi16, Gpi8 and Gaa1 for a
sub-complex of the GPI transamidase. GPI transamidase
that adds glycosylphosphatidylinositols (GPIs) to newly
synthesized proteins.
Length = 498
Score = 25.6 bits (56), Expect = 3.3
Identities = 13/48 (27%), Positives = 14/48 (29%), Gaps = 10/48 (20%)
Query: 30 LPNLCRITLISDIMEQ----KYQLRISKCALRSVERQGGLDRFLSNSK 73
LPNL L I E KY L + Q F K
Sbjct: 127 LPNLDLFNLAQRITEHEGFMKYSLHLQP------SDQHSNSGFWQRLK 168
>gnl|CDD|177096 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 25.5 bits (56), Expect = 3.3
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 69 LSNSKKENLSARMRTLRSQILKKMSEK 95
L+ K ++L+ R +T+R+QI K EK
Sbjct: 1022 LTEKKIKDLTDRTKTIRNQIEKITKEK 1048
>gnl|CDD|109553 pfam00502, Phycobilisome, Phycobilisome protein.
Length = 157
Score = 24.5 bits (54), Expect = 6.9
Identities = 7/33 (21%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 67 RFLSNSKKENLSARMRT--LRSQILKKMSEKSS 97
R+LS + E+L ++ R + + ++ +S
Sbjct: 12 RYLSGGELESLKGFVQRGNARLEAAEALTANAS 44
>gnl|CDD|38760 KOG3552, KOG3552, KOG3552, FERM domain protein FRM-8 [General
function prediction only].
Length = 1298
Score = 24.3 bits (52), Expect = 7.2
Identities = 12/39 (30%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 53 KCALRSVERQGGLDRFLSNSKKENLSAR-MRTLRSQILK 90
K +L+ +E++ GL+RF+ S E + + ++ S LK
Sbjct: 330 KISLKYIEKEWGLERFVPVSLLEGMKRKEIKKAISHFLK 368
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.128 0.342
Gapped
Lambda K H
0.267 0.0610 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 976,485
Number of extensions: 40495
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 94
Number of HSP's successfully gapped: 19
Length of query: 97
Length of database: 6,263,737
Length adjustment: 65
Effective length of query: 32
Effective length of database: 4,859,152
Effective search space: 155492864
Effective search space used: 155492864
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: 51 (23.7 bits)