RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780255|ref|YP_003064668.1| 30S ribosomal protein S3
[Candidatus Liberibacter asiaticus str. psy62]
(227 letters)
>d2qalc1 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal domain
{Escherichia coli [TaxId: 562]}
Length = 105
Score = 138 bits (348), Expect = 6e-34
Identities = 45/105 (42%), Positives = 71/105 (67%)
Query: 2 GQKINPILFRLGVNCTWNSRWFARGSEYGALLHEDLKIREYLQCHLKQAGVAKILIERTH 61
GQK++P RLG+ WNS WFA E+ L D K+R+YL L +A V++I+IER
Sbjct: 1 GQKVHPNGIRLGIVKPWNSTWFANTKEFADNLDSDFKVRQYLTKELAKASVSRIVIERPA 60
Query: 62 KNCRIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEV 106
K+ R+ +++ARPG++IGKKG D+EK+RK ++++ +++ EV
Sbjct: 61 KSIRVTIHTARPGIVIGKKGEDVEKLRKVVADIAGVPAQINIAEV 105
>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain
{Thermus thermophilus [TaxId: 274]}
Length = 105
Score = 134 bits (339), Expect = 5e-33
Identities = 45/105 (42%), Positives = 67/105 (63%)
Query: 2 GQKINPILFRLGVNCTWNSRWFARGSEYGALLHEDLKIREYLQCHLKQAGVAKILIERTH 61
G KI+PI FRLG+ W SRW+A +Y LL ED +IR L+ L AG+A++ IER
Sbjct: 1 GNKIHPIGFRLGITRDWESRWYAGKKQYRHLLLEDQRIRGLLEKELYSAGLARVDIERAA 60
Query: 62 KNCRIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEV 106
N + V+ A+PG++IG+ G I +R++L+ +T + L+V EV
Sbjct: 61 DNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTGKNVALNVQEV 105
>d2qalc2 d.53.1.1 (C:106-206) Ribosomal protein S3 C-terminal domain
{Escherichia coli [TaxId: 562]}
Length = 101
Score = 131 bits (330), Expect = 7e-32
Identities = 65/101 (64%), Positives = 79/101 (78%), Gaps = 1/101 (0%)
Query: 108 KPEINATLIAQSIAQQLERRVVFRRAMKRAVQSAMRFGADGVKVIASGRLNGAELSRTEC 167
KPE++A L+A SI QLERRV+FRRAMKRAVQ+AMR GA G+KV SGRL GAE++RTE
Sbjct: 2 KPELDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIKVEVSGRLGGAEIARTEW 61
Query: 168 YLEGRVPLQTLRAHIDYGTAVAETAYGSCGIKVYVSLRDEV 208
Y EGRVPL TLRA IDY T+ A T YG G+KV++ + E+
Sbjct: 62 YREGRVPLHTLRADIDYNTSEAHTTYGVIGVKVWI-FKGEI 101
>d2uubc2 d.53.1.1 (C:107-207) Ribosomal protein S3 C-terminal domain
{Thermus thermophilus [TaxId: 274]}
Length = 101
Score = 125 bits (315), Expect = 3e-30
Identities = 56/101 (55%), Positives = 71/101 (70%), Gaps = 1/101 (0%)
Query: 108 KPEINATLIAQSIAQQLERRVVFRRAMKRAVQSAMRFGADGVKVIASGRLNGAELSRTEC 167
P ++A L+AQ +A+Q+ERR RRA+K+AVQ M GA G KVI SGR+ GAE +RTE
Sbjct: 2 NPNLSAPLVAQRVAEQIERRFAVRRAIKQAVQRVMESGAKGAKVIVSGRIGGAEQARTEW 61
Query: 168 YLEGRVPLQTLRAHIDYGTAVAETAYGSCGIKVYVSLRDEV 208
+GRVPL TLRA+IDYG A+A T YG G+K Y+ EV
Sbjct: 62 AAQGRVPLHTLRANIDYGFALARTTYGVLGVKAYI-FLGEV 101
>d1wh9a_ d.52.3.1 (A:) Ribosomal protein S3 N-terminal domain {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 92
Score = 73.2 bits (180), Expect = 2e-14
Identities = 14/72 (19%), Positives = 31/72 (43%), Gaps = 3/72 (4%)
Query: 38 KIREYLQCHLKQAGVAKILIERTHKNCRIIVYSARPGLIIGKKGTDIEKIRKKLS---NM 94
++ E+L L + G + + + T II+ + R ++G+KG I ++ +
Sbjct: 11 ELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGF 70
Query: 95 TNSEIHLSVNEV 106
+ L +V
Sbjct: 71 PEGSVELYAEKV 82
>d1wf3a2 d.52.3.1 (A:181-298) GTPase Era C-terminal domain {Thermus
thermophilus [TaxId: 274]}
Length = 118
Score = 32.9 bits (75), Expect = 0.026
Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 15/79 (18%)
Query: 39 IREYLQCHLKQ------AGVAKILIERTHKNCRI--IVYSARP---GLIIGKKGTDIEKI 87
+RE L A + + ER + I I+Y RP ++IG+ G I++I
Sbjct: 17 LREEAMKRLWHEVPYAVATKVEEVAERENGVLYIKAILYVERPSQKAIVIGEGGRKIKEI 76
Query: 88 ----RKKLSNMTNSEIHLS 102
RK+L + +++L
Sbjct: 77 GQATRKQLEALLGKKVYLD 95
>d1egaa2 d.52.3.1 (A:183-295) GTPase Era C-terminal domain
{Escherichia coli [TaxId: 562]}
Length = 113
Score = 31.0 bits (70), Expect = 0.086
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 15/79 (18%)
Query: 39 IREYLQCHLKQAGVAKILI--------ERTHKNCRIIVYSARPG---LIIGKKGTDIEKI 87
IRE L L + + ER + ++ R G ++IG KG I+ I
Sbjct: 16 IREKLMRFLGAELPYSVTVEIERFVSNERGGYDINGLILVEREGQKKMVIGNKGAKIKTI 75
Query: 88 ----RKKLSNMTNSEIHLS 102
RK + M + +HL
Sbjct: 76 GIEARKDMQEMFEAPVHLE 94
>d2axya1 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Human (Homo
sapiens) [TaxId: 9606]}
Length = 71
Score = 27.4 bits (61), Expect = 1.0
Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 65 RIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPEI 111
R++++ G IIGKKG ++K+R++ + + I++S P+ I
Sbjct: 7 RLLMHGKEVGSIIGKKGESVKKMREE----SGARINISEGNCPERII 49
>d2gysa1 b.1.2.1 (A:1-103) Common beta-chain in the GM-CSF, IL-3 and
IL-5 receptors {Human (Homo sapiens) [TaxId: 9606]}
Length = 103
Score = 27.1 bits (60), Expect = 1.1
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 4/27 (14%)
Query: 170 EGRVPLQTLRAHIDYGTAV----AETA 192
E +PLQTLR + DY + + A+T
Sbjct: 1 EETIPLQTLRCYNDYTSHITCRWADTQ 27
>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens)
[TaxId: 9606]}
Length = 65
Score = 26.8 bits (59), Expect = 1.6
Identities = 5/32 (15%), Positives = 13/32 (40%), Gaps = 1/32 (3%)
Query: 35 EDLKIREYLQCHLKQ-AGVAKILIERTHKNCR 65
E + L ++ ++K++ RT +
Sbjct: 9 EKELFEQGLAKFGRRWTKISKLIGSRTVLQVK 40
>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2,
KH3 {Human (Homo sapiens) [TaxId: 9606]}
Length = 74
Score = 25.9 bits (57), Expect = 2.9
Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 4/53 (7%)
Query: 64 CRIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPEINATLI 116
+ V G I+GK G + + ++ +T + I +S P +
Sbjct: 5 VEMAVPENLVGAILGKGGKTLVEYQE----LTGARIQISKKGEFLPGTRNRRV 53
>d2ctea1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId:
9606]}
Length = 81
Score = 25.8 bits (57), Expect = 3.2
Identities = 12/64 (18%), Positives = 25/64 (39%), Gaps = 14/64 (21%)
Query: 74 GLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPEI----------NATLIAQSIAQQ 123
+IGK G ++ + K T ++I + + P +I A I+ +
Sbjct: 22 RFVIGKNGEKLQDLELK----TATKIQIPRPDDPSNQIKITGTKEGIEKARHEVLLISAE 77
Query: 124 LERR 127
++R
Sbjct: 78 QDKR 81
>d1we8a_ d.51.1.1 (A:) Tudor and KH domain containing protein, Tdrkh
{Mouse (Mus musculus) [TaxId: 10090]}
Length = 104
Score = 25.7 bits (56), Expect = 3.8
Identities = 21/106 (19%), Positives = 40/106 (37%), Gaps = 11/106 (10%)
Query: 50 AGVAKILIERTHKNCRIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKP 109
+G + IL E T ++ V G IIG+ G I I K + ++I
Sbjct: 3 SGSSGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKA----SGAKITCDKESEGTL 58
Query: 110 ------EINATLIAQSIAQQL-ERRVVFRRAMKRAVQSAMRFGADG 148
+I+ T + A+ L +V +++ + + + G
Sbjct: 59 LLSRLIKISGTQKEVAAAKHLILEKVSEDEELRKRIAHSASGPSSG 104
>d1x4na1 d.51.1.1 (A:8-86) Far upstream binding element, FBP {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 79
Score = 25.5 bits (56), Expect = 4.2
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 65 RIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPE 110
V G IIG+ G I +I+++ + +I ++ + PE
Sbjct: 11 EYKVPDGMVGFIIGRGGEQISRIQQE----SGCKIQIAPDSGGLPE 52
>d1zzka1 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapiens)
[TaxId: 9606]}
Length = 75
Score = 25.2 bits (55), Expect = 4.8
Identities = 16/60 (26%), Positives = 24/60 (40%)
Query: 65 RIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPEINATLIAQSIAQQL 124
++ + G IIGK G I++IR + + L +E I T AQ L
Sbjct: 7 QVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYL 66
>d1j4wa1 d.51.1.1 (A:1-74) Far upstream binding element, FBP {Human
(Homo sapiens) [TaxId: 9606]}
Length = 74
Score = 25.2 bits (55), Expect = 5.2
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 65 RIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPE 110
+ + G++IG+ G I+KI+ I ++ PE
Sbjct: 6 DVPIPRFAVGIVIGRNGEMIKKIQN----DAGVRIQFKPDDGTTPE 47
>d1vi7a2 d.58.11.2 (A:138-208) Hypothetical protein YigZ, C-terminal
domain {Escherichia coli [TaxId: 562]}
Length = 71
Score = 25.1 bits (55), Expect = 5.6
Identities = 11/59 (18%), Positives = 21/59 (35%)
Query: 43 LQCHLKQAGVAKILIERTHKNCRIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHL 101
LQC Q + L+ + Y A L + + + KL++ + + L
Sbjct: 7 LQCEYHQLTGIEALLGQCDGKIINSDYQAFVLLRVALPAAKVAEFSAKLADFSRGSLQL 65
>d2choa2 c.1.8.10 (A:127-436) Glucosaminidase GH84, catalytic domain
{Bacteroides thetaiotaomicron [TaxId: 818]}
Length = 310
Score = 24.9 bits (54), Expect = 6.5
Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 3/67 (4%)
Query: 54 KILIERTHKNCRIIVYSARPGLIIGKKGTDIEKIRKKLSNMTN---SEIHLSVNEVPKPE 110
+ L+ ++N V++ PG I D + + K M + +++
Sbjct: 63 QELVAVANENEVDFVWAIHPGQDIKWNKEDRDLLLAKFEKMYQLGVRSFAVFFDDISGEG 122
Query: 111 INATLIA 117
N A
Sbjct: 123 TNPQKQA 129
>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus
musculus) [TaxId: 10090]}
Length = 50
Score = 24.7 bits (54), Expect = 6.8
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 35 EDLKIREYLQCH--LKQAGVAKILIERTHKNCR 65
ED K+++ ++ + +A L RT C+
Sbjct: 8 EDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQ 40
>d1j4wa2 d.51.1.1 (A:104-174) Far upstream binding element, FBP
{Human (Homo sapiens) [TaxId: 9606]}
Length = 71
Score = 24.5 bits (53), Expect = 7.3
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 65 RIIVYSARPGLIIGKKGTDIEKIRKKLSNMTNSEIHLSVNEVPKPEINATLI 116
IV + + GLIIGK G I+ I + + I L N P + N L
Sbjct: 4 NFIVPTGKTGLIIGKGGETIKSIS----QQSGARIELQRNPPPNADPNMKLF 51
>d1wvna1 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Human (Homo
sapiens) [TaxId: 9606]}
Length = 70
Score = 24.4 bits (53), Expect = 8.2
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 65 RIIVYSARPGLIIGKKGTDIEKIRKK 90
+ + + G IIG++G +I +IR+
Sbjct: 5 ELTIPNNLIGCIIGRQGANINEIRQM 30
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.320 0.134 0.387
Gapped
Lambda K H
0.267 0.0622 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 834,667
Number of extensions: 37757
Number of successful extensions: 148
Number of sequences better than 10.0: 1
Number of HSP's gapped: 148
Number of HSP's successfully gapped: 35
Length of query: 227
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 145
Effective length of database: 1,281,736
Effective search space: 185851720
Effective search space used: 185851720
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)