RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 042358
(193 letters)
>3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 197
Score = 152 bits (385), Expect = 4e-47
Identities = 111/159 (69%), Positives = 129/159 (81%), Gaps = 3/159 (1%)
Query: 26 LSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAEL-ETTDLKKY 84
+SLSF+S ++ KP + R+K S+S P ++ + + AP E+ ET DL+K+
Sbjct: 1 FASLSFTSNLTPKPQTL--PMARTKPFSLSNPAVVKPLVITATSATAPVEVAETADLEKF 58
Query: 85 VKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVP 144
VKSRLPGGFAAQT+ GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQY+K P
Sbjct: 59 VKSRLPGGFAAQTVIGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYVKTP 118
Query: 145 LVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
L TLGYET+YDVFVKAHGGGLSGQAQAI+LGVARALLK
Sbjct: 119 LATLGYETNYDVFVKAHGGGLSGQAQAISLGVARALLKV 157
>2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding,
rRNA-binding, metal-binding, zinc-finger, translation;
HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.14.1.1
PDB: 1gix_L* 1hnw_I* 1hnx_I* 1hnz_I* 1hr0_I 1i94_I*
1i95_I* 1i96_I* 1i97_I* 1ibk_I* 1ibl_I* 1ibm_I 1j5e_I
1jgo_L* 1jgp_L* 1jgq_L* 1ml5_L* 1n32_I* 1n33_I* 1n34_I
...
Length = 128
Score = 119 bits (302), Expect = 2e-35
Identities = 35/88 (39%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 96 QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYD 155
+ +GTGRRK A+ARV L+ G GK +N +D EY + PL + +D
Sbjct: 2 EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYF-QGLVRAVAALEPLRAVDALGRFD 60
Query: 156 VFVKAHGGGLSGQAQAITLGVARALLKF 183
++ GGG SGQ AI LG+ARAL+++
Sbjct: 61 AYITVRGGGKSGQIDAIKLGIARALVQY 88
>3r8n_I 30S ribosomal protein S9; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2ykr_I 3fih_I* 3iy8_I 2wwl_I 3oar_I 3oaq_I
3ofb_I 3ofa_I 3ofp_I 3ofx_I 3ofy_I 3ofo_I 3r8o_I 4a2i_I
2qal_I* 1p6g_I 1p87_I 2aw7_I 2avy_I 2i2u_I ...
Length = 127
Score = 116 bits (292), Expect = 7e-34
Identities = 33/86 (38%), Positives = 51/86 (59%), Gaps = 1/86 (1%)
Query: 98 IFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVF 157
+GTGRRK + ARV ++ G GK +IN R ++Y G ++ PL + D++
Sbjct: 3 YYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYF-GRETARMVVRQPLELVDMVEKLDLY 61
Query: 158 VKAHGGGLSGQAQAITLGVARALLKF 183
+ GGG+SGQA AI G+ RAL+++
Sbjct: 62 ITVKGGGISGQAGAIRHGITRALMEY 87
>2xzm_I RPS16E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_I
Length = 145
Score = 100 bits (251), Expect = 1e-27
Identities = 19/90 (21%), Positives = 40/90 (44%), Gaps = 4/90 (4%)
Query: 96 QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET--S 153
Q + GR+K A+A ++ G G +N + I P++ LG + +
Sbjct: 7 QLVQTFGRKKNAVAVASVRPGKGLLKVNGSPIDMI--NPQILQAKIYEPILLLGQQKFAN 64
Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLKF 183
D+ ++ G G + Q AI +++ ++ +
Sbjct: 65 LDIRIRVRGSGYTSQVYAIRQALSKGIVAY 94
>3u5c_Q RP61R, 40S ribosomal protein S16-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_I 3o30_J 3o2z_J 3u5g_Q 1s1h_I
3jyv_I*
Length = 143
Score = 100 bits (250), Expect = 2e-27
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 4/92 (4%)
Query: 94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET- 152
A ++ G++K A A ++ G G +N + + PL+ +G +
Sbjct: 3 AVPSVQTFGKKKSATAVAHVKAGKGLIKVNGSPITLV--EPEILRFKVYEPLLLVGLDKF 60
Query: 153 -SYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
+ D+ V+ GGG Q AI +A+ L+ +
Sbjct: 61 SNIDIRVRVTGGGHVSQVYAIRQAIAKGLVAY 92
>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 146
Score = 100 bits (250), Expect = 2e-27
Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 4/90 (4%)
Query: 96 QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET--S 153
Q++ GR+K A A + G G +N R + + L + P++ LG E
Sbjct: 8 QSVQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMI-EPRTL-QYKLLEPVLLLGKERFAG 65
Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLKF 183
D+ V+ GGG Q AI +++AL+ +
Sbjct: 66 VDIRVRVKGGGHVAQIYAIRQSISKALVAY 95
>3iz6_I 40S ribosomal protein S16 (S9P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 149
Score = 99.3 bits (248), Expect = 4e-27
Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 4/92 (4%)
Query: 94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET- 152
T+ GR+K A+A + G G +N + + P++ G
Sbjct: 9 PPGTVQCFGRKKTAVAVSYCKPGRGLIKVNGVPIELI--RPEMLRLKAFEPILLAGRSRF 66
Query: 153 -SYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
D+ ++ GGG + Q AI +A+AL+ +
Sbjct: 67 KDIDMRIRVRGGGKTSQIYAIRQAIAKALVAY 98
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 35.0 bits (80), Expect = 0.014
Identities = 45/241 (18%), Positives = 69/241 (28%), Gaps = 80/241 (33%)
Query: 1 ATFALYVYPSSTMAMSPAISPLTSSLSSL--SFSSQISQKPGIPFVSLHRSKSISISPKN 58
F YV S++ + L+ F + + I H + + + +N
Sbjct: 62 GKFLGYV---SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI-----H-ALAAKLLQEN 112
Query: 59 DKTP---KLVVSATEAAPAELETTDLKKYVKSRLPGGF-AAQ-------TIFGTG----- 102
D T K ++ A + K S L F A IFG G
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRP-FDKKSNSAL---FRAVGEGNAQLVAIFG-GQGNTD 167
Query: 103 -----------------RRKCAIARVVLQEGTGKFIINYRDAKE-YLQGNPL--WLQ--- 139
+ L E I DA++ + QG + WL+
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSE----LIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 140 ------Y-----IKVPLVTLGYETSYDVFVKAHG----------GGLSGQAQAITLGVAR 178
Y I PL+ + Y V K G G +G +Q + VA
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 179 A 179
A
Sbjct: 284 A 284
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 0.27
Identities = 10/52 (19%), Positives = 13/52 (25%), Gaps = 27/52 (51%)
Query: 18 AISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSAT 69
A+ L +SL K D P L + AT
Sbjct: 21 ALKKLQASL-----------KLYAD----------------DSAPALAIKAT 45
Score = 26.1 bits (56), Expect = 7.0
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 75 ELETTDLKKYVKSRLPGGFAAQ-TI 98
+L+ + LK Y P A + T+
Sbjct: 24 KLQAS-LKLYADDSAP-ALAIKATM 46
>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity,
immune response, leucine-rich repeat, glycoprotein,
transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A
Length = 178
Score = 29.5 bits (66), Expect = 0.42
Identities = 6/35 (17%), Positives = 12/35 (34%)
Query: 124 YRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
+ + L L+ Q +K L + F+
Sbjct: 6 HHSSGVDLGTENLYFQSMKTTQEQLKRNVRFHAFI 40
>1qi9_A Protein (vanadium bromoperoxidase); haloperoxidase, oxidoreductase;
2.05A {Ascophyllum nodosum} SCOP: a.111.1.2
Length = 556
Score = 30.1 bits (67), Expect = 0.52
Identities = 11/66 (16%), Positives = 24/66 (36%)
Query: 115 EGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITL 174
+ +F+ N RD + + + + L+ LG + V + QA +
Sbjct: 259 DDELRFVRNARDLARVTFTDNINTEAYRGALILLGLDAFNRAGVNGPFIDIDRQAGFVNF 318
Query: 175 GVARAL 180
G++
Sbjct: 319 GISHYF 324
>3dwl_F Actin-related protein 2/3 complex subunit 4; propellor,
actin-binding, ATP-binding, cytoskeleton, nucleot
binding, WD repeat; HET: ATP; 3.78A
{Schizosaccharomyces pombe}
Length = 168
Score = 26.1 bits (57), Expect = 6.5
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 22 LTSSLSSLSFSSQISQKPGIPFVSLHRSKSISISP 56
LT+SL+ FSS+I ++ P V + RS I + P
Sbjct: 16 LTASLALEEFSSEIVERQSQPEVEVGRSPEILLKP 50
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.131 0.373
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,789,505
Number of extensions: 160490
Number of successful extensions: 310
Number of sequences better than 10.0: 1
Number of HSP's gapped: 303
Number of HSP's successfully gapped: 17
Length of query: 193
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 105
Effective length of database: 4,244,745
Effective search space: 445698225
Effective search space used: 445698225
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 (21.7 bits)
S2: 55 (24.9 bits)