RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780250|ref|YP_003064663.1| 50S ribosomal protein L24
[Candidatus Liberibacter asiaticus str. psy62]
(102 letters)
>gnl|CDD|178786 PRK00004, rplX, 50S ribosomal protein L24; Reviewed.
Length = 105
Score = 122 bits (309), Expect = 2e-29
Identities = 60/104 (57%), Positives = 79/104 (75%), Gaps = 3/104 (2%)
Query: 1 MEKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP-NKEAGIISK 59
M KI+ GD V+V+AGKDKGK G+V+ V+ K + V+GVNIVK+HQ+ N + GII K
Sbjct: 2 MMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNKVIVEGVNIVKKHQKPNQENPQGGIIEK 61
Query: 60 EASIHLSNLSLID-KDGKQVRVGFSFV-DGKKIRIAKRSGEPID 101
EA IH+SN++L+D K GK RVGF F+ DGKK+R+AK+SGE ID
Sbjct: 62 EAPIHISNVALVDPKTGKATRVGFKFLEDGKKVRVAKKSGEVID 105
>gnl|CDD|162194 TIGR01079, rplX_bact, ribosomal protein L24, bacterial/organelle.
This model recognizes bacterial and organellar forms of
ribosomal protein L24. It excludes eukaryotic and
archaeal forms, designated L26 in eukaryotes.
Length = 104
Score = 94.7 bits (236), Expect = 5e-21
Identities = 52/104 (50%), Positives = 72/104 (69%), Gaps = 4/104 (3%)
Query: 1 MEKIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEA--GIIS 58
KI+ GD V V++GKDKGK G+V+ V+ K+ + V+GVN+VK+H + P + + GII
Sbjct: 1 KMKIKKGDTVKVISGKDKGKRGKVLKVLPKTNKVIVEGVNMVKKHVKPKPTQRSQGGIIE 60
Query: 59 KEASIHLSNLSLID-KDGKQVRVGFSFV-DGKKIRIAKRSGEPI 100
KEA IH+SN+ L D K GK RVG F DGKK+R+ K++GE I
Sbjct: 61 KEAPIHISNVMLFDPKTGKATRVGIRFEEDGKKVRVFKKTGEII 104
>gnl|CDD|183399 PRK12281, rplX, 50S ribosomal protein L24; Reviewed.
Length = 76
Score = 62.7 bits (153), Expect = 2e-11
Identities = 30/66 (45%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 3 KIRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQT-PNKEAGIISKEA 61
K++ GD V V+AG DKGK G+V+ V+ K R V+GV I K+ + + N G I KE
Sbjct: 6 KVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQKNPNGGFIEKEM 65
Query: 62 SIHLSN 67
IH+SN
Sbjct: 66 PIHISN 71
>gnl|CDD|179242 PRK01191, rpl24p, 50S ribosomal protein L24P; Validated.
Length = 120
Score = 37.6 bits (88), Expect = 7e-04
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 10/71 (14%)
Query: 4 IRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASI 63
+R GD V V+ G KG+ G+V+ V K GR +V+GV + K + P I
Sbjct: 46 VRKGDTVKVMRGDFKGEEGKVVEVDLKRGRIYVEGVTVKKADGTEVPRP----------I 95
Query: 64 HLSNLSLIDKD 74
H SN+ + D
Sbjct: 96 HPSNVMITKLD 106
>gnl|CDD|130152 TIGR01080, rplX_A_E, ribosomal protein L24p/L26e,
archaeal/eukaryotic. This model represents the archaeal
and eukaryotic branch of the ribosomal protein L24p/L26e
family. Bacterial and organellar forms are represented
by the related TIGR01079.
Length = 114
Score = 34.8 bits (80), Expect = 0.006
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 10/69 (14%)
Query: 4 IRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTPNKEAGIISKEASI 63
+R GD+V ++ G KG G+V V K R +V+GV K + + P I
Sbjct: 42 VRKGDKVRIMRGDFKGHEGKVSKVDLKRYRIYVEGVTKEKVNGTEVP----------VPI 91
Query: 64 HLSNLSLID 72
H SN+ +
Sbjct: 92 HPSNVMITK 100
>gnl|CDD|185508 PTZ00194, PTZ00194, 60S ribosomal protein L26; Provisional.
Length = 143
Score = 28.6 bits (64), Expect = 0.42
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 4 IRTGDRVLVLAGKDKGKAGQVMGVVRKSGRAFVQGVNIVKRHQRQTP 50
+R D V+V+ G KG+ G+V V RK ++ + K +
Sbjct: 47 VRKDDEVMVVRGHHKGREGKVTAVYRKKWVIHIEKITREKANGEPVQ 93
>gnl|CDD|128978 smart00739, KOW, KOW (Kyprides, Ouzounis, Woese) motif. Motif in
ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Length = 28
Score = 26.1 bits (59), Expect = 2.2
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 3 KIRTGDRVLVLAGKDKGKAGQVMGVVRK 30
K GD V V+AG KGK G+V+ V +
Sbjct: 1 KFEVGDTVRVIAGPFKGKVGKVLEVDGE 28
>gnl|CDD|151160 pfam10647, Gmad1, Lipoprotein LpqB beta-propeller domain. The
Gmad1 domain is found associated with the GerMN family,
pfam10646, in bacterial spore formation. It is predicted
to have a beta-propeller fold and to have a passive
binding role rather than a catalytic function owing to
the low number of conserved hydrophilic residues.
Length = 254
Score = 25.5 bits (56), Expect = 3.2
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 5 RTGDRVLVLAGKDKGKAGQVMGVVRKSG 32
R G R V+ + G V GV R G
Sbjct: 120 RDGTRAAVVVERGGGGQVYVAGVERDGG 147
>gnl|CDD|179493 PRK02889, tolB, translocation protein TolB; Provisional.
Length = 427
Score = 25.3 bits (56), Expect = 3.8
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 68 LSLIDKDGKQVRVGFSFVDGKKIRIAKRSGEPI 100
++ + K G + ++ S DG+ + A S EPI
Sbjct: 166 IAYVIKTGNRYQLQISDADGQNAQSALSSPEPI 198
>gnl|CDD|163415 TIGR03703, plsB, glycerol-3-phosphate O-acyltransferase. Members
of this protein family are PlsB, glycerol-3-phosphate
O-acyltransferase, present in E. coli and numerous
related species. In many bacteria, PlsB is not found,
and appears to be replaced by a two enzyme system for
1-acyl-glycerol-3-phosphate biosynthesis, the PlsX/Y
system.
Length = 799
Score = 24.9 bits (55), Expect = 4.3
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 13 LAGKDKGK--AGQVMGVVRK---SGRAFV 36
L GK K K V+ +RK G+ +V
Sbjct: 433 LRGKRKEKESVFGVLKTLRKLRNFGQGYV 461
>gnl|CDD|184375 PRK13891, PRK13891, conjugal transfer protein TrbE; Provisional.
Length = 852
Score = 24.7 bits (54), Expect = 5.3
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 22 GQVM--GVVRKSGRAFVQGVNI 41
GQ + GVV K GR F+Q V I
Sbjct: 260 GQELWGGVVPKIGRKFIQVVAI 281
>gnl|CDD|181952 PRK09558, ushA, bifunctional UDP-sugar hydrolase/5'-nucleotidase
periplasmic precursor; Reviewed.
Length = 551
Score = 24.9 bits (55), Expect = 5.5
Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 64 HLSNLSLIDKDGKQVRVGFSFVDGKKIRIAKR 95
+ +S++ GK V V ++GK + AK
Sbjct: 463 QFAGVSMVVDCGKVVDV---KINGKPLDPAKT 491
>gnl|CDD|177718 PLN00100, PLN00100, light-harvesting complex chlorophyll-a/b
protein of photosystem I (Lhca); Provisional.
Length = 246
Score = 24.5 bits (53), Expect = 5.9
Identities = 4/19 (21%), Positives = 10/19 (52%)
Query: 80 VGFSFVDGKKIRIAKRSGE 98
V + ++ + R ++GE
Sbjct: 123 VVMAVLEAARYRGFMKTGE 141
>gnl|CDD|181132 PRK07818, PRK07818, dihydrolipoamide dehydrogenase; Reviewed.
Length = 466
Score = 24.2 bits (53), Expect = 7.3
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 11/60 (18%)
Query: 39 VNIVKRHQRQTPNKEAGIISKEASIHLSNLSL----------IDKDGKQVRVGFSFVDGK 88
V IV+ R PN++A + SKE + L + ID +G +V V S DGK
Sbjct: 198 VTIVEFLDRALPNEDAEV-SKEIAKQYKKLGVKILTGTKVESIDDNGSKVTVTVSKKDGK 256
>gnl|CDD|171815 PRK12911, PRK12911, bifunctional preprotein translocase subunit
SecD/SecF; Reviewed.
Length = 1403
Score = 24.4 bits (53), Expect = 7.3
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 78 VRVGFSFVDGKKIRIAKR 95
+R G FV GK+IR+A +
Sbjct: 578 LRFGIDFVGGKQIRLAFK 595
>gnl|CDD|152397 pfam11962, DUF3476, Domain of unknown function (DUF3476). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria and viruses. This domain is
typically between 213 to 236 amino acids in length. This
domain has a conserved VGL sequence motif.
Length = 222
Score = 24.2 bits (53), Expect = 8.1
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 74 DGKQVRVGFSFV--DGKKIRIAKRSGEPI 100
DG+ + G+ V DG KIR A+ + +
Sbjct: 65 DGQPIDTGY-LVTLDGDKIRKAQEGDDIL 92
>gnl|CDD|181700 PRK09209, PRK09209, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 761
Score = 24.3 bits (53), Expect = 8.1
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 47 RQTPNKEAGIISKEASIHLSNL-SLIDKDGKQVRVGFSFVDGKKIRIAKRSGE 98
R PNK G+ I+ SNL + I ++ + + G +I I K+ G+
Sbjct: 441 RMNPNKHEGM------IYSSNLCTEIMQNMSPTVMIQEIISGGQIVITKQPGD 487
>gnl|CDD|172174 PRK13614, PRK13614, lipoprotein LpqB; Provisional.
Length = 573
Score = 23.7 bits (51), Expect = 9.8
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 5 RTGDRVLVLAGKDKGKAGQVMGVVR 29
R G R LV++ ++ QV G+VR
Sbjct: 443 REGVRALVISEQNGKSRVQVAGIVR 467
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
0.317 0.137 0.373
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,641,914
Number of extensions: 91576
Number of successful extensions: 240
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 37
Length of query: 102
Length of database: 5,994,473
Length adjustment: 69
Effective length of query: 33
Effective length of database: 4,503,521
Effective search space: 148616193
Effective search space used: 148616193
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: 50 (23.0 bits)