RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780236|ref|YP_003064649.1| 50S ribosomal protein L17
[Candidatus Liberibacter asiaticus str. psy62]
(136 letters)
>gnl|CDD|180154 PRK05591, rplQ, 50S ribosomal protein L17; Validated.
Length = 113
Score = 191 bits (487), Expect = 6e-50
Identities = 72/111 (64%), Positives = 88/111 (79%)
Query: 6 SGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRL 65
GRKL RTSSHRKAM N+A S+I HE+I TTLPKAKELR +VEKL+TL KKG LH+ R
Sbjct: 3 KGRKLGRTSSHRKAMLRNLATSLIEHERIETTLPKAKELRRVVEKLITLAKKGDLHARRQ 62
Query: 66 AISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFV 116
A +++ D + V+KLF IA RY+DR+GGY RI+K GFR GD+APMA+IE V
Sbjct: 63 AFARLRDKEAVHKLFDEIAPRYADRNGGYTRILKLGFRRGDNAPMAIIELV 113
>gnl|CDD|129169 TIGR00059, L17, ribosomal protein L17. Eubacterial and
mitochondrial. The mitochondrial form, from yeast,
contains an additional 110 amino acids C-terminal to the
region found by this model.
Length = 112
Score = 138 bits (349), Expect = 5e-34
Identities = 62/112 (55%), Positives = 82/112 (73%)
Query: 6 SGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRL 65
S RKL RTS+HRKA+ N+A+++I HE+I TTL KAKELR +VEKL+TL K ++ R
Sbjct: 1 SYRKLGRTSAHRKALLRNLASALIRHEKIKTTLAKAKELRRVVEKLITLAKVDNFNNRRE 60
Query: 66 AISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVD 117
A + I + ++V+KLF IA RY+ R GGY RI+K G R GD+A MA+IE VD
Sbjct: 61 AKAYIRNKEIVHKLFSEIAPRYAQRPGGYTRILKLGPRRGDAAEMAIIELVD 112
>gnl|CDD|173371 PTZ00076, PTZ00076, 60S ribosomal protein L17; Provisional.
Length = 253
Score = 59.0 bits (143), Expect = 4e-10
Identities = 36/112 (32%), Positives = 54/112 (48%), Gaps = 1/112 (0%)
Query: 8 RKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAI 67
R+ + HR N ++ + ++ TLP+AKEL+ E+L+ L KK S
Sbjct: 20 RRAHGQPHHRWDSIKNQLDELLRYGRLELTLPRAKELQQYAEELIYLAKKDTPESNLKVE 79
Query: 68 SKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKR-GFRYGDSAPMAVIEFVDR 118
S + KL+ Y DR + R++ + R D+APMA IEFVDR
Sbjct: 80 SMLRTPQGRRKLYEKYVPLYRDRPFFFTRVVNQWRLRLRDAAPMAYIEFVDR 131
>gnl|CDD|181674 PRK09148, PRK09148, aminotransferase; Validated.
Length = 405
Score = 30.8 bits (70), Expect = 0.14
Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 12/83 (14%)
Query: 43 ELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNK------LFGIIAKRYSDRS----- 91
+L P + + TLG K G ++ AI+ GDV + FG I RS
Sbjct: 88 KLNPDTQVVATLGSKEGFANMAQAITAPGDVILCPNPSYPIHAFGFIMAGGVIRSVPAEP 147
Query: 92 -GGYLRIMKRGFRYGDSAPMAVI 113
+ ++R R+ P+A+I
Sbjct: 148 DEEFFPALERAVRHSIPKPIALI 170
>gnl|CDD|181268 PRK08175, PRK08175, aminotransferase; Validated.
Length = 395
Score = 28.9 bits (65), Expect = 0.50
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 43 ELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVV 76
++ P E +VT+G K GL L LA GD +V
Sbjct: 87 DIDPESEAIVTIGSKEGLAHLMLATLDHGDTVLV 120
>gnl|CDD|181511 PRK08636, PRK08636, aspartate aminotransferase; Provisional.
Length = 403
Score = 27.0 bits (60), Expect = 1.5
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 43 ELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVV 76
+L P E + T+G K G L AI+ GDV +V
Sbjct: 91 DLDPETEVVATMGSKEGYVHLVQAITNPGDVAIV 124
>gnl|CDD|147801 pfam05843, Suf, Suppressor of forked protein (Suf). This family
consists of several eukaryotic suppressor of forked
(Suf) like proteins. The Drosophila melanogaster
Suppressor of forked [Su(f)] protein shares homology
with the yeast RNA14 protein and the 77-kDa subunit of
human cleavage stimulation factor, which are proteins
involved in mRNA 3' end formation. This suggests a role
for Su(f) in mRNA 3' end formation in Drosophila. The
su(f) gene produces three transcripts; two of them are
polyadenylated at the end of the transcription unit, and
one is a truncated transcript, polyadenylated in intron
4. It is thought that su(f) plays a role in the
regulation of poly(A) site utilisation and an important
role of the GU-rich sequence for this regulation to
occur.
Length = 275
Score = 27.3 bits (61), Expect = 1.5
Identities = 15/57 (26%), Positives = 21/57 (36%), Gaps = 16/57 (28%)
Query: 32 EQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAKRYS 88
E +VT L E +P+ +K SK GD+ + KL KR
Sbjct: 94 ETVVTKLTPEPEAKPLWKKF---------IKYE---SKYGDLSSILKL----EKRMF 134
>gnl|CDD|162665 TIGR02025, BchH, magnesium chelatase, H subunit. This model
represents the H subunit of the magnesium chelatase
complex responsible for magnesium insertion into the
protoporphyrin IX ring in the biosynthesis of both
chlorophyll and bacteriochlorophyll. In
chlorophyll-utilizing species, this gene is known as
ChlH, while in bacteriochlorophyll-utilizing spoecies it
is called BchH. Subunit H is the largest (~140kDa) of
the three subunits (the others being BchD/ChlD and
BchI/ChlI), and is known to bind protoporphyrin IX.
Subunit H is homologous to the CobN subunit of
cobaltochelatase and by anology with that enzyme,
subunit H is believed to also bind the magnesium ion
which is inserted into the ring. In conjunction with the
hydrolysis of ATP by subunits I and D, a conformation
change is believed to happen in subunit H causing the
magnesium ion insertion into the distorted
protoporphyrin ring.
Length = 1216
Score = 27.0 bits (60), Expect = 1.7
Identities = 15/75 (20%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 30 WHEQIVTTLPKAKELRPIVE---KLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAKR 86
W ++++ + ++ + E +L+ L K G ++ K G V K+ R
Sbjct: 73 WLREVLSQIRNQEDTVVVFESMPELMKLTKLGSF-AMGKPAEKSGMPKPVKKIADKSNGR 131
Query: 87 YSDRSGGYLRIMKRG 101
D+ GY++++K
Sbjct: 132 GEDKLAGYMKLLKIV 146
>gnl|CDD|180317 PRK05942, PRK05942, aspartate aminotransferase; Provisional.
Length = 394
Score = 26.2 bits (58), Expect = 3.2
Identities = 17/34 (50%), Positives = 18/34 (52%)
Query: 43 ELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVV 76
EL P E L LG K GL L LA GDV +V
Sbjct: 93 ELDPDSEALPLLGSKEGLTHLALAYVNPGDVVLV 126
>gnl|CDD|182898 PRK11010, ampG, muropeptide transporter; Validated.
Length = 491
Score = 25.8 bits (57), Expect = 3.8
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 71 GDVDVVNKLFGIIAKRYSDRSGGYLRIMKR 100
G+V +VNK G++A GG L M+R
Sbjct: 258 GEVGLVNKTLGLLATIVGALYGGIL--MQR 285
>gnl|CDD|172445 PRK13932, PRK13932, stationary phase survival protein SurE;
Provisional.
Length = 257
Score = 24.7 bits (54), Expect = 7.1
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 59 GLHSLRLAISKIGDVDVV 76
G+H L ++ KIG V VV
Sbjct: 20 GIHVLAASMKKIGRVTVV 37
>gnl|CDD|163500 TIGR03788, marine_srt_targ, marine proteobacterial sortase target
protein. Members of this protein family are restricted
to the Proteobacteria. Each contains a C-terminal
sortase-recognition motif, transmembrane domain, and
basic residues cluster at the the C-terminus, and is
encoded adjacent to a sortase gene. This protein is
frequently the only sortase target in its genome, which
is as unusual its occurrence in Gram-negative rather
than Gram-positive genomes. Many bacteria with this
system are marine. In addition to the LPXTG signal,
members carry a vault protein inter-alpha-trypsin
inhibitor domain (pfam08487) and a von Willebrand factor
type A domain (pfam00092).
Length = 596
Score = 24.7 bits (54), Expect = 7.9
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 7 GRKLNRTSSHRKAMFSNMAASIIWHEQIVTTL 38
G+K R +F+N A+I E +V T+
Sbjct: 77 GKKAALVEQQRPNLFTNKVANIGPGETVVVTI 108
>gnl|CDD|182374 PRK10316, PRK10316, hypothetical protein; Provisional.
Length = 209
Score = 24.9 bits (54), Expect = 8.2
Identities = 15/41 (36%), Positives = 20/41 (48%)
Query: 26 ASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLA 66
AS+ E V T K ++ EK+ KKG + LRLA
Sbjct: 113 ASVGISEDYVATPEKEAAIKIANEKMAKGDKKGAMEELRLA 153
>gnl|CDD|140343 PTZ00322, PTZ00322,
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase;
Provisional.
Length = 664
Score = 24.5 bits (53), Expect = 8.4
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 88 SDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDLSAK 123
S R GG R+ +RG Y A+ E+ +++S
Sbjct: 435 SGRIGGNSRLTERGRAYSR----ALFEYFQKEISTT 466
>gnl|CDD|131381 TIGR02328, TIGR02328, conserved hypothetical protein. Members of
this protein are found in a small number of
taxonomically well separated species, yet are strongly
conserved, suggesting lateral gene transfer. Members
are found in Treponema denticola, Clostridium
acetobutylicum, and several of the Firmicutes. The
function of this protein is unknown.
Length = 120
Score = 24.4 bits (53), Expect = 9.5
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 29 IWHEQIVTTLPKAKEL 44
+WH+ ++T LP+ + L
Sbjct: 3 LWHQSLITKLPRQQLL 18
>gnl|CDD|184052 PRK13435, PRK13435, response regulator; Provisional.
Length = 145
Score = 24.6 bits (54), Expect = 9.8
Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 81 GIIAKRYSDRSG----GYLRIMKRGFRYGDSAPMAV 112
G+IAK YS R YL + G R PM V
Sbjct: 100 GVIAKPYSPRGVARALSYLSARRVGDRASGPTPMGV 135
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.321 0.135 0.382
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,181,563
Number of extensions: 131043
Number of successful extensions: 259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 26
Length of query: 136
Length of database: 5,994,473
Length adjustment: 83
Effective length of query: 53
Effective length of database: 4,201,009
Effective search space: 222653477
Effective search space used: 222653477
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: 52 (23.9 bits)