RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033152
(126 letters)
>3u5e_V L17A, YL32, 60S ribosomal protein L23-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3izc_M
1s1i_R 3izs_M* 3j16_I 3o5h_U 3o58_U 3u5i_V 2x7n_C 3jyw_R
2zkr_k 3iz5_M 3izr_M 4a17_J 4a1a_J 4a1c_J 4a1e_J
Length = 137
Score = 113 bits (284), Expect = 8e-34
Identities = 89/134 (66%), Positives = 106/134 (79%), Gaps = 14/134 (10%)
Query: 7 GGSAGNKFRMSLGLPVAATVNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVK 66
G+ G KFR+SLGLPV A +NCADN+GA+NLYII+VKG RLNRLP+A +GDMVMATVK
Sbjct: 4 NGAQGTKFRISLGLPVGAIMNCADNSGARNLYIIAVKGSGSRLNRLPAASLGDMVMATVK 63
Query: 67 KGKPDLRKKVMPAVIVRQRKPWRRKDGVFMYFE--------------GSAITGPIGKECA 112
KGKP+LRKKVMPA++VRQ K WRR+DGVF+YFE GSAITGP+GKECA
Sbjct: 64 KGKPELRKKVMPAIVVRQAKSWRRRDGVFLYFEDNAGVIANPKGEMKGSAITGPVGKECA 123
Query: 113 DLWPRIASAANAIV 126
DLWPR+AS + +V
Sbjct: 124 DLWPRVASNSGVVV 137
>1vq8_K 50S ribosomal protein L14P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: b.39.1.1 PDB: 1vq4_K*
1vq5_K* 1vq6_K* 1vq7_K* 1s72_K* 1vq9_K* 1vqk_K* 1vql_K*
1vqm_K* 1vqn_K* 1vqo_K* 1vqp_K* 1yhq_K* 1yi2_K* 1yij_K*
1yit_K* 1yj9_K* 1yjn_K* 1yjw_K* 2otj_K* ...
Length = 132
Score = 104 bits (260), Expect = 3e-30
Identities = 54/130 (41%), Positives = 75/130 (57%), Gaps = 14/130 (10%)
Query: 11 GNKFRMSLGLPVAATVNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKP 70
++ GL + + CADNTGA+ L +ISV G G NRLP A +GD + +V KG P
Sbjct: 3 ALGADVTQGLEKGSLITCADNTGARELKVISVHGYSGTKNRLPKAGLGDKITVSVTKGTP 62
Query: 71 DLRKKVMPAVIVRQRKPWRRKDGVFMYFE--------------GSAITGPIGKECADLWP 116
++R++V+ AV+VRQRKP RR DG + FE G+ + GPI +E A +
Sbjct: 63 EMRRQVLEAVVVRQRKPIRRPDGTRVKFEDNAAVIVDENEDPRGTELKGPIAREVAQRFG 122
Query: 117 RIASAANAIV 126
+ASAA IV
Sbjct: 123 SVASAATMIV 132
>3bbo_M Ribosomal protein L14; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 121
Score = 81.6 bits (201), Expect = 2e-21
Identities = 33/118 (27%), Positives = 59/118 (50%), Gaps = 21/118 (17%)
Query: 26 VNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKPD---LRKKVMPAVIV 82
+N ADN+GA+ L I + G R A +GD+++A +K+ P+ R +V+ AV+V
Sbjct: 8 LNVADNSGARELMCIRIIGASNR----RYARIGDVIVAVIKEAIPNTPLERSEVIRAVVV 63
Query: 83 RQRKPWRRKDGVFMYFE--------------GSAITGPIGKECADLWPRIASAANAIV 126
R K +R +G+ + ++ G+ I G I +E + +I S A ++
Sbjct: 64 RTCKELKRDNGMIIRYDDNAAVIIDQEGNPKGTRIFGAIARELRQKFAKIVSLAPEVL 121
>1whi_A Ribosomal protein L14; rRNA-binding; 1.50A {Geobacillus
stearothermophilus} SCOP: b.39.1.1 PDB: 1giy_N 1ml5_n*
1c04_D 1yl3_N 2b66_O 2b9n_O 2b9p_O 487d_M
Length = 122
Score = 75.5 bits (185), Expect = 5e-19
Identities = 38/121 (31%), Positives = 63/121 (52%), Gaps = 22/121 (18%)
Query: 24 ATVNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKPD---LRKKVMPAV 80
+ + ADN+GA+ + +I V G GR A +GD+V+ATVK P + +V+ AV
Sbjct: 6 SRLKVADNSGAREVLVIKVLGGSGR----RYANIGDVVVATVKDATPGGVVKKGQVVKAV 61
Query: 81 IVRQRKPWRRKDGVFMYFE--------------GSAITGPIGKECADL-WPRIASAANAI 125
+VR ++ RR DG ++ F+ G+ I GP+ +E D + +I S A +
Sbjct: 62 VVRTKRGVRRPDGSYIRFDENACVIIRDDKSPRGTRIFGPVARELRDKDFMKIISLAPEV 121
Query: 126 V 126
+
Sbjct: 122 I 122
>3v2d_O 50S ribosomal protein L14; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
2j03_O 2jl6_O 2jl8_O 2v47_O 2v49_O 2wdi_O 2wdj_O 2wdl_O
2wdn_O 2wh2_O 2wh4_O 2wrj_O 2wrl_O 2wro_O 2wrr_O 2x9s_O
2x9u_O 2xg0_O 2xg2_O 2xqe_O ...
Length = 122
Score = 74.7 bits (183), Expect = 9e-19
Identities = 34/119 (28%), Positives = 57/119 (47%), Gaps = 22/119 (18%)
Query: 26 VNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKPDLRKK---VMPAVIV 82
+ ADNTGA+ + I V A VGD+++A+VK+ P K V+ AV+V
Sbjct: 8 LEVADNTGARKIMCIRVLKGSNA----KYATVGDVIVASVKEAIPRGAVKEGDVVKAVVV 63
Query: 83 RQRKPWRRKDGVFMYFE--------------GSAITGPIGKECADL-WPRIASAANAIV 126
R +K +R DG + F+ G+ + GP+ +E + + +I S A ++
Sbjct: 64 RTKKEIKRPDGSAIRFDDNAAVIINNQLEPRGTRVFGPVARELREKGFMKIVSLAPEVL 122
>3r8s_K 50S ribosomal protein L14; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3oat_K* 3oas_K* 3ofd_K 3ofc_K 3ofr_K* 3ofz_K* 3og0_K
3ofq_K 3r8t_K 3i1n_K 1p85_I 1p86_I 1vs8_K 1vs6_K 2aw4_K
2awb_K 1vt2_K 2i2v_K 2i2t_K* 2qao_K* ...
Length = 122
Score = 73.9 bits (181), Expect = 3e-18
Identities = 36/121 (29%), Positives = 56/121 (46%), Gaps = 23/121 (19%)
Query: 24 ATVNCADNTGAKNLYIISVKGIKGRLNRLPSACVGDMVMATVKKGKPDLR---KKVMPAV 80
+N ADN+GA+ + I V G R A VGD++ T+K+ P + V+ AV
Sbjct: 6 TMLNVADNSGARRVMCIKVLGGSHR----RYAGVGDIIKITIKEAIPRGKVKKGDVLKAV 61
Query: 81 IVRQRKPWRRKDGVFMYFE---------------GSAITGPIGKECADL-WPRIASAANA 124
+VR +K RR DG + F+ G+ I GP+ +E + +I S A
Sbjct: 62 VVRTKKGVRRPDGSVIRFDGNACVLLNNNSEQPIGTRIFGPVTRELRSEKFMKIISLAPE 121
Query: 125 I 125
+
Sbjct: 122 V 122
>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 = 30.4 bits (68), Expect = 0.13
Identities = 18/102 (17%), Positives = 30/102 (29%), Gaps = 38/102 (37%)
Query: 3 KRGR-----------GGS-----AGNKFRMSLGLPVAATVNCADNTGAK----------N 36
RG G S A N R++ A + G + N
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 37 L----YIISVKGIKGRLNRLPSACVGDMVMATVKKGKPDLRK 74
+ Y+ + G L L + V+ +K K D+ +
Sbjct: 1848 VENQQYVAA-----GDLRALDTVT---NVLNFIKLQKIDIIE 1881
Score = 28.9 bits (64), Expect = 0.55
Identities = 14/51 (27%), Positives = 16/51 (31%), Gaps = 14/51 (27%)
Query: 54 SACVGDMVMATVKKGKPDLRKKVMPAVIVRQRKPWRRKDGVFMYFEGSAIT 104
S G M M DL K A + W R D F G +I
Sbjct: 1626 SQEQG-MGM--------DLYKTS-KAA----QDVWNRADNHFKDTYGFSIL 1662
>3kd8_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase;
structural genomics, PSI-2, protein genomics, MCSG,
glycolysis isomerase; 2.60A {Thermoplasma acidophilum}
PDB: 3idd_A
Length = 399
Score = 26.3 bits (57), Expect = 3.5
Identities = 6/33 (18%), Positives = 14/33 (42%)
Query: 86 KPWRRKDGVFMYFEGSAITGPIGKECADLWPRI 118
DGV ++ E S+ +G + ++ +
Sbjct: 362 TDGVMNDGVHLFDELSSASGSLRITSYNVMDIL 394
>4evq_A Putative ABC transporter subunit, substrate-bindi component;
structural genomics, PSI-biology, midwest center for
structu genomics; HET: MSE PHB; 1.40A {Rhodopseudomonas
palustris} PDB: 4evr_A
Length = 375
Score = 25.0 bits (55), Expect = 9.1
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 57 VGDMVMATVKKGKPDLRKKVMPAV 80
V + + +K GK PAV
Sbjct: 342 VQNFYLRELKGGKSVNLGLAAPAV 365
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
0.321 0.136 0.414
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,918,854
Number of extensions: 105278
Number of successful extensions: 251
Number of sequences better than 10.0: 1
Number of HSP's gapped: 243
Number of HSP's successfully gapped: 17
Length of query: 126
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 44
Effective length of database: 4,412,271
Effective search space: 194139924
Effective search space used: 194139924
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 (21.9 bits)
S2: 51 (23.4 bits)