RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4243
(104 letters)
>3gty_S TF, 30S ribosomal protein S7; chaperone-client complex, cell cycle,
cell division, chapero isomerase, rotamase,
ribonucleoprotein, binding; 3.40A {Thermotoga maritima}
Length = 149
Score = 63.3 bits (155), Expect = 3e-14
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGADNKGKVVKKKTDLHRQC 92
VPI + + ++W +E A+ K + LA+ +I +N G +KKK D HR
Sbjct: 80 VPIEVQEPRRTSLALRWIVEAARAK-KGRPMKEKLAEEIIAAYNNTGTAIKKKEDTHRMA 138
Query: 93 EANRAYAHYYF 103
EANRA+AHY +
Sbjct: 139 EANRAFAHYRW 149
>1hus_A Ribosomal protein S7; RNA-binding protein, decoding center,; 2.50A
{Geobacillus stearothermophilus} SCOP: a.75.1.1
Length = 155
Score = 63.3 bits (155), Expect = 3e-14
Identities = 23/71 (32%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGADNKGKVVKKKTDLHRQC 92
VP+ + ++W ++ A+ + +E + LA ++D A+N G VKK+ D H+
Sbjct: 86 VPVEVRPDRRVSLGLRWLVQYARLR-NEKTMEERLANEIMDAANNTGAAVKKREDTHKMA 144
Query: 93 EANRAYAHYYF 103
EAN+A+AHY +
Sbjct: 145 EANKAFAHYRW 155
>1rss_A Ribosomal protein S7; RNA-binding, translation; 1.90A {Thermus
thermophilus} SCOP: a.75.1.1 PDB: 1n32_G* 1i95_G*
1i96_G* 1i97_G* 1i94_G 1j5e_G* 1n33_G* 1n34_G 1n36_G
1pns_G 1pnx_G 1voq_G 1vos_G 1vov_G 1vox_G 1voz_G 2e5l_G
2zm6_G 3fic_G* 3mr8_G ...
Length = 151
Score = 62.9 bits (154), Expect = 4e-14
Identities = 28/71 (39%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGADNKGKVVKKKTDLHRQC 92
VP+ +S + + ++W ++ A + E R + +A L+D A+ KG VKKK D+ R
Sbjct: 82 VPMEVSPRRQQSLALRWLVQAANQR-PERRAAVRIAHELMDAAEGKGGAVKKKEDVERMA 140
Query: 93 EANRAYAHYYF 103
EANRAYAHY +
Sbjct: 141 EANRAYAHYRW 151
>3i1m_G 30S ribosomal protein S7; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_G* 3e1a_U 3e1c_U 1vs5_G 3i1o_G
3i1q_G 3i1s_G 3i1z_G 3i21_G 3izv_K* 3izw_K* 3kc4_G
3or9_G 3ora_G 3uoq_G* 2qal_G* 1p6g_G 1p87_G 2aw7_G
2avy_G ...
Length = 179
Score = 63.4 bits (155), Expect = 4e-14
Identities = 27/71 (38%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGADNKGKVVKKKTDLHRQC 92
VP+ + M+W +E A+ + + + LA L D A+NKG VKK+ D+HR
Sbjct: 87 VPVEVRPVRRNALAMRWIVEAARKR-GDKSMALRLANELSDAAENKGTAVKKREDVHRMA 145
Query: 93 EANRAYAHYYF 103
EAN+A+AHY +
Sbjct: 146 EANKAFAHYRW 156
>3bbn_G Ribosomal protein S7; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 155
Score = 62.6 bits (153), Expect = 4e-14
Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGADNKGKVVKKKTDLHRQC 92
VPI I + + ++W + A+ K + L+ L+D A G V+KK + HR
Sbjct: 87 VPIEIGSTQGKALAIRWLLGAAR-KRPGRNMAFKLSSELVDAAKGSGDAVRKKEETHRMA 145
Query: 93 EANRAYAHY 101
EANRA+AH+
Sbjct: 146 EANRAFAHF 154
>3r8n_G 30S ribosomal protein S7; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2ykr_G 3oaq_G 3ofa_G 3ofx_G 3ofo_G 3r8o_G
3sfs_G* 3ofp_G 3fih_G* 2wwl_G 3oar_G 3ofb_G 3ofy_G
4a2i_G 2gy9_G 2gyb_G
Length = 151
Score = 55.6 bits (135), Expect = 2e-11
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGADNKGKVVKKKTDLHRQC 92
VP+ + M+W +E A+ + + + LA L D A+NKG VKK+ D+HR
Sbjct: 86 VPVEVRPVRRNALAMRWIVEAARKR-GDKSMALRLANELSDAAENKGTAVKKREDVHRMA 144
Query: 93 EANRAYA 99
EAN+A+A
Sbjct: 145 EANKAFA 151
>2zkq_g 40S ribosomal protein S5E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protei complex; 8.70A {Canis
familiaris}
Length = 204
Score = 42.0 bits (99), Expect = 6e-06
Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 4/68 (5%)
Query: 33 VPIPISDKEARFKCMKWHIEIAKDKP--SEVRFSDNLAQILIDGADNKGKV--VKKKTDL 88
+ +S + + A++ + ++ LA LI+ A +KKK +L
Sbjct: 137 QAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEL 196
Query: 89 HRQCEANR 96
R ++NR
Sbjct: 197 ERVAKSNR 204
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G*
2noq_F 1s1h_G 3iz6_F
Length = 225
Score = 39.7 bits (93), Expect = 3e-05
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 47 MKWHIEIAKDKP--SEVRFSDNLAQILIDGADNKGKV--VKKKTDLHRQCEANR 96
+ A++ + ++ LA+ LI+ A +KKK +L R ++NR
Sbjct: 172 IALLTIGAREAAFRNIKTIAETLAEELINAAKGSSTSYAIKKKDELERVAKSNR 225
>2xzm_G Ribosomal protein S7 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_G 3j0o_T
3j0l_T
Length = 200
Score = 38.8 bits (91), Expect = 6e-05
Identities = 10/55 (18%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 47 MKWHIEIAKDKP--SEVRFSDNLAQILIDGADNKGKV---VKKKTDLHRQCEANR 96
+ + I+ ++ S ++ LA +I+ N + ++KK ++ + + NR
Sbjct: 146 IYFIIKGCRESAFKSMRSIAETLADEIINAEKNNTQSSWAIRKKDEIEKVAKGNR 200
>1iqv_A Ribosomal protein S7; RNA-binding, decoding center, helix-turn-
helix, ribosome; 2.10A {Pyrococcus horikoshii} SCOP:
a.75.1.1
Length = 218
Score = 38.6 bits (90), Expect = 9e-05
Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 47 MKWHIEIAKDKP--SEVRFSDNLAQILIDGADN--KGKVVKKKTDLHRQCEANR 96
++ A K +++ F++ LA+ +I A+ K KK ++ R E++R
Sbjct: 165 LRNIALGASAKCYRTKMSFAEALAEEIILAANKDPKSYAYSKKLEIERIAESSR 218
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
0.326 0.139 0.443
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,589,725
Number of extensions: 80348
Number of successful extensions: 242
Number of sequences better than 10.0: 1
Number of HSP's gapped: 242
Number of HSP's successfully gapped: 26
Length of query: 104
Length of database: 6,701,793
Length adjustment: 69
Effective length of query: 35
Effective length of database: 4,775,244
Effective search space: 167133540
Effective search space used: 167133540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.5 bits)