RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8077
(223 letters)
>gnl|CDD|185437 PTZ00086, PTZ00086, 40S ribosomal protein S16; Provisional.
Length = 147
Score = 131 bits (331), Expect = 6e-39
Identities = 51/82 (62%), Positives = 67/82 (81%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPLEMIEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNGGG 139
K+A AVA +GKG +RV+G PL++I P+ L+ K+ EP+LL+GK++F+ +DIRVRV GGG
Sbjct: 18 KTAVAVALVTKGKGLIRVNGVPLDLINPETLRAKVFEPLLLVGKERFSRLDIRVRVRGGG 77
Query: 140 HVAQIYAIRQAISKALVAYYQK 161
VAQ YAIRQAI+K LVAYYQK
Sbjct: 78 QVAQAYAIRQAIAKGLVAYYQK 99
Score = 80.5 bits (199), Expect = 2e-19
Identities = 32/44 (72%), Positives = 38/44 (86%)
Query: 180 LTLLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAYYQK 223
L L+GK++F+ +DIRVRV GGG VAQ YAIRQAI+K LVAYYQK
Sbjct: 56 LLLVGKERFSRLDIRVRVRGGGQVAQAYAIRQAIAKGLVAYYQK 99
>gnl|CDD|177799 PLN00210, PLN00210, 40S ribosomal protein S16; Provisional.
Length = 141
Score = 129 bits (327), Expect = 2e-38
Identities = 61/126 (48%), Positives = 86/126 (68%), Gaps = 7/126 (5%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPLEMIEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNGGG 139
K+A AV YCK G+G ++++G P+E+++P++L++K EPILLLG+ +FAGVD+R+RV GGG
Sbjct: 12 KTAVAVTYCKRGRGLIKINGCPIELVQPEILRFKAFEPILLLGRHRFAGVDMRIRVKGGG 71
Query: 140 HVAQIYAIRQAISKALVAYYQKCKQATGLLGTEKMLVKSTLTLLGKD-------KFAGVD 192
H +QIYAIRQ+I+KALVAYYQK + +L++ TLL D KF G
Sbjct: 72 HTSQIYAIRQSIAKALVAYYQKYVDEQSKKEIKDILLRYDRTLLVADPRRCEPKKFGGRG 131
Query: 193 IRVRVN 198
R R
Sbjct: 132 ARARFQ 137
Score = 81.7 bits (202), Expect = 7e-20
Identities = 32/42 (76%), Positives = 39/42 (92%)
Query: 182 LLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAYYQK 223
LLG+ +FAGVD+R+RV GGGH +QIYAIRQ+I+KALVAYYQK
Sbjct: 52 LLGRHRFAGVDMRIRVKGGGHTSQIYAIRQSIAKALVAYYQK 93
>gnl|CDD|201193 pfam00380, Ribosomal_S9, Ribosomal protein S9/S16. This family
includes small ribosomal subunit S9 from prokaryotes and
S16 from eukaryotes.
Length = 121
Score = 97.5 bits (244), Expect = 4e-26
Identities = 37/94 (39%), Positives = 51/94 (54%), Gaps = 6/94 (6%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPL-EMIEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNGG 138
K+A A + K G G + ++G+PL E + L+ K+ EP+ L G DI V V GG
Sbjct: 4 KTAVARVWLKPGSGKITINGKPLEEYFPNETLRMKILEPLELTGTLG--KFDIVVTVKGG 61
Query: 139 GHVAQIYAIRQAISKALVAYYQKCKQA---TGLL 169
G Q AIR AI++ALVAY + + GLL
Sbjct: 62 GISGQAGAIRLAIARALVAYDPELRPELKKAGLL 95
Score = 59.0 bits (144), Expect = 1e-11
Identities = 22/51 (43%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 173 KMLVKSTLTLLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAYYQK 223
+M + L L G DI V V GGG Q AIR AI++ALVAY +
Sbjct: 36 RMKILEPLELTGTLG--KFDIVVTVKGGGISGQAGAIRLAIARALVAYDPE 84
>gnl|CDD|179041 PRK00474, rps9p, 30S ribosomal protein S9P; Reviewed.
Length = 134
Score = 94.2 bits (235), Expect = 1e-24
Identities = 38/81 (46%), Positives = 55/81 (67%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPLEMIEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNGGG 139
K+A A A +EGKG +R++G PLE+IEP+L + K+ EP++L G+D + VDI V V GGG
Sbjct: 12 KTAIARATIREGKGRVRINGVPLELIEPELARLKIMEPLILAGEDLRSKVDIDVNVEGGG 71
Query: 140 HVAQIYAIRQAISKALVAYYQ 160
+ Q A R AI++ LV +
Sbjct: 72 IMGQADAARTAIARGLVEWTG 92
Score = 50.3 bits (121), Expect = 4e-08
Identities = 19/43 (44%), Positives = 25/43 (58%)
Query: 180 LTLLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAYYQ 222
L L G+D + VDI V V GGG + Q A R AI++ LV +
Sbjct: 50 LILAGEDLRSKVDIDVNVEGGGIMGQADAARTAIARGLVEWTG 92
>gnl|CDD|223181 COG0103, RpsI, Ribosomal protein S9 [Translation, ribosomal
structure and biogenesis].
Length = 130
Score = 85.3 bits (212), Expect = 2e-21
Identities = 37/87 (42%), Positives = 49/87 (56%), Gaps = 3/87 (3%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPLEMIEP-KLLQYKLQEPILLLGKDKFAGVDIRVRVNGG 138
KSA A GKG + V+GRPLE+ P + L+ K+ +P+LL G DI V V GG
Sbjct: 13 KSAVARVRLVPGKGKITVNGRPLELYFPRETLRMKIMQPLLLTGT--VGKFDIDVTVKGG 70
Query: 139 GHVAQIYAIRQAISKALVAYYQKCKQA 165
G Q AIR I++ALV Y + + A
Sbjct: 71 GISGQAGAIRHGIARALVEYDPELRPA 97
Score = 51.4 bits (124), Expect = 1e-08
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 173 KMLVKSTLTLLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAYYQ 222
+M + L L G DI V V GGG Q AIR I++ALV Y
Sbjct: 45 RMKIMQPLLLTGT--VGKFDIDVTVKGGGISGQAGAIRHGIARALVEYDP 92
>gnl|CDD|132666 TIGR03627, arch_S9P, archaeal ribosomal protein S9P. This model
describes exclusively the archaeal ribosomal protein
S9P. Homologous eukaryotic and bacterial ribosomal
proteins are excluded from this model [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 130
Score = 80.1 bits (198), Expect = 2e-19
Identities = 35/81 (43%), Positives = 53/81 (65%), Gaps = 1/81 (1%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPLEMIEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNGGG 139
K+A A A +EGKG +R++G P+E+ P+L + K+ EP++L G D VDI V+V+GGG
Sbjct: 9 KTAIARATIREGKGRVRINGVPVELYPPELARLKIMEPLILAG-DIAKEVDIDVKVSGGG 67
Query: 140 HVAQIYAIRQAISKALVAYYQ 160
+ Q A R AI++ LV +
Sbjct: 68 IMGQADAARTAIARGLVEFTG 88
Score = 41.9 bits (99), Expect = 3e-05
Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 182 LLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAYYQ 222
+L D VDI V+V+GGG + Q A R AI++ LV +
Sbjct: 48 ILAGDIAKEVDIDVKVSGGGIMGQADAARTAIARGLVEFTG 88
>gnl|CDD|178888 PRK00132, rpsI, 30S ribosomal protein S9; Reviewed.
Length = 130
Score = 59.7 bits (146), Expect = 9e-12
Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 5/81 (6%)
Query: 80 KSATAVAYCKEGKGNLRVDGRPL-EMIEPKLLQYKLQEPILLLG-KDKFAGVDIRVRVNG 137
K+A A K G G + V+GR L E + L+ +++P+ L + KF D+ V V G
Sbjct: 13 KTAVARVRLKPGSGKITVNGRDLEEYFPRETLRMVVRQPLELTETEGKF---DVYVTVKG 69
Query: 138 GGHVAQIYAIRQAISKALVAY 158
GG Q AIR I++AL+ Y
Sbjct: 70 GGISGQAGAIRHGIARALLEY 90
Score = 43.5 bits (104), Expect = 9e-06
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 171 TEKMLVKSTLTLLG-KDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALVAY 220
T +M+V+ L L + KF D+ V V GGG Q AIR I++AL+ Y
Sbjct: 43 TLRMVVRQPLELTETEGKF---DVYVTVKGGGISGQAGAIRHGIARALLEY 90
>gnl|CDD|214357 CHL00079, rps9, ribosomal protein S9.
Length = 130
Score = 41.0 bits (97), Expect = 7e-05
Identities = 32/92 (34%), Positives = 47/92 (51%), Gaps = 15/92 (16%)
Query: 74 ILLLGT---KSATAVAYCKEGKGNLRVDGRPLEMIEPKLLQYK------LQEPILLLGKD 124
IL +GT K+A A G G + ++G+P E + LQY ++ P+ LLG +
Sbjct: 3 ILYIGTGRRKTAVAQVRLVPGSGEIIINGKPAE----EYLQYNPNYLNAIKAPLKLLGLE 58
Query: 125 KFAGVDIRVRVNGGGHVAQIYAIRQAISKALV 156
DI V+V GGG Q AIR +++AL
Sbjct: 59 N--KYDIIVKVKGGGLTGQAEAIRLGLARALC 88
Score = 31.0 bits (71), Expect = 0.21
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 175 LVKSTLTLLGKDKFAGVDIRVRVNGGGHVAQIYAIRQAISKALV 218
+K+ L LLG + DI V+V GGG Q AIR +++AL
Sbjct: 47 AIKAPLKLLGLEN--KYDIIVKVKGGGLTGQAEAIRLGLARALC 88
>gnl|CDD|130046 TIGR00973, leuA_bact, 2-isopropylmalate synthase, bacterial type.
This is the first enzyme of leucine biosynthesis. A
larger family of homologous proteins includes
homocitrate synthase, distinct lineages of
2-isopropylmalate synthase, several distinct,
uncharacterized, orthologous sets in the Archaea, and
other related enzymes. This model describes a family of
2-isopropylmalate synthases found primarily in Bacteria.
The homologous families in the Archaea may represent
isozymes and/or related enzymes [Amino acid
biosynthesis, Pyruvate family].
Length = 494
Score = 32.4 bits (74), Expect = 0.19
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 105 IEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNG 137
IE +LL+Y + + GKD VD+ +R NG
Sbjct: 439 IEVELLEYSITA--VGEGKDALGQVDVVLRHNG 469
Score = 27.4 bits (61), Expect = 6.6
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 5/45 (11%)
Query: 157 AYYQKCKQATGLLGTEKMLVKSTLTLL--GKDKFAGVDIRVRVNG 199
A Y+ +A G+ E L++ ++T + GKD VD+ +R NG
Sbjct: 428 AVYKAINRALGI---EVELLEYSITAVGEGKDALGQVDVVLRHNG 469
>gnl|CDD|178130 PLN02515, PLN02515, naringenin,2-oxoglutarate 3-dioxygenase.
Length = 358
Score = 29.2 bits (65), Expect = 1.9
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 153 KALVAYYQKCKQATGLLGTEKMLVKSTLTLLGKDKFAGV 191
K +V YY KC Q LG ++ T+TLL +D+ G+
Sbjct: 196 KVVVNYYPKCPQPDLTLGLKRHTDPGTITLLLQDQVGGL 234
>gnl|CDD|183976 PRK13325, PRK13325, bifunctional biotin--[acetyl-CoA-carboxylase]
ligase/pantothenate kinase; Reviewed.
Length = 592
Score = 28.5 bits (63), Expect = 3.0
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 162 CKQATGLLGTEKMLVKSTLTLLGKDKFAGVDIRVRVNGGGHVAQI 206
C++A LG + + ++G+DK G+ I GG VA +
Sbjct: 163 CRRALSRLGLKTQIKWPNDLVVGRDKLGGILIETVRTGGKTVAVV 207
>gnl|CDD|184826 PRK14799, thrS, threonyl-tRNA synthetase; Provisional.
Length = 545
Score = 27.9 bits (62), Expect = 4.4
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 173 KMLVKSTLTLLGKDKFAGVDIRV 195
KML+ T+ + K F DI+
Sbjct: 295 KMLISKTVEVWHKFGFKDDDIKP 317
>gnl|CDD|216561 pfam01545, Cation_efflux, Cation efflux family. Members of this
family are integral membrane proteins, that are found to
increase tolerance to divalent metal ions such as
cadmium, zinc, and cobalt. These proteins are thought to
be efflux pumps that remove these ions from cells.
Length = 273
Score = 27.7 bits (62), Expect = 4.6
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 129 VDIRVRVNGGGHVAQIYAIRQAISKALVAYY 159
VDI + V+ V + + I I +AL +
Sbjct: 226 VDIHIEVDPDLTVEEAHEIADEIERALKEKF 256
Score = 27.7 bits (62), Expect = 4.6
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 191 VDIRVRVNGGGHVAQIYAIRQAISKALVAYY 221
VDI + V+ V + + I I +AL +
Sbjct: 226 VDIHIEVDPDLTVEEAHEIADEIERALKEKF 256
>gnl|CDD|227276 COG4940, ComGF, Competence protein ComGF [Intracellular trafficking
and secretion].
Length = 154
Score = 26.9 bits (60), Expect = 5.7
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 98 DGRPLEMIEPKLLQYKLQEPILLLGKDKFAGVDIRVRVNGGGHVAQIYAI 147
+ +E L K I+ + + R++VNG G+ +Y +
Sbjct: 71 GSKAFIQVEQNELYVKKSGKIIAYELIES--LKRRLQVNGQGYEPMLYHV 118
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
0.319 0.137 0.385
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,040,062
Number of extensions: 1038784
Number of successful extensions: 942
Number of sequences better than 10.0: 1
Number of HSP's gapped: 934
Number of HSP's successfully gapped: 39
Length of query: 223
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 130
Effective length of database: 6,812,680
Effective search space: 885648400
Effective search space used: 885648400
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: 57 (25.5 bits)