RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 030915
(169 letters)
>2zjr_Q 50S ribosomal protein L23; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.12.1.1 PDB: 1sm1_R* 2aar_R 2d3o_R
2zjp_Q* 2zjq_Q 1nkw_R 3cf5_Q* 3dll_Q* 3pio_Q* 3pip_Q*
1nwy_R* 1nwx_R* 1xbp_R* 1pnu_R 1pny_R 1vor_U 1vou_U
1vow_U 1voy_U 1vp0_U
Length = 95
Score = 64.9 bits (159), Expect = 1e-14
Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
P A+K EIK ++ +G V + T+N+ GK+K+ G + + D KKA V L
Sbjct: 31 PKATKTEIKDAIQQAFGVRVIGISTMNVPGKRKRVGRFIGQRNDRKKAIVRLA 83
>3tve_T 50S ribosomal protein L23; RNA, ribosome, tRNA, translation,
mRNA; 3.10A {Thermus thermophilus} PDB: 3pyr_T 3pyo_T
3pyv_T 3pyt_T 3tvh_T 1n88_A 1vsa_R 1vsp_R 2hgj_W 2hgq_W
2hgu_W 2j01_X 2j03_X 2jl6_X 2jl8_X 2v47_X 2v49_X 2wdi_X
2wdj_X 2wdl_X ...
Length = 92
Score = 64.9 bits (159), Expect = 1e-14
Identities = 24/53 (45%), Positives = 34/53 (64%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
P A+K EIK +E+ + +V KV TL++ GKKK+ G L +PD KKA V +
Sbjct: 30 PKATKTEIKNAVETAFKVKVVKVNTLHVRGKKKRLGRYLGKRPDRKKAIVQVA 82
>3r8s_T 50S ribosomal protein L23; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_T 2wwq_T 3oat_T* 3oas_T* 3ofd_T 3ofc_T 3ofr_T*
3ofz_T* 3og0_T 3ofq_T 3r8t_T 2j28_T 3e1b_M 3e1d_M
3iy9_T 3i1n_T 1p85_R 1p86_R 1vs8_T 1vs6_T ...
Length = 93
Score = 64.5 bits (158), Expect = 2e-14
Identities = 24/53 (45%), Positives = 35/53 (66%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
A+K EIK ++ L+ EV+ V TL ++GK K+ G + + D+KKAYVTLK
Sbjct: 36 KDATKAEIKAAVQKLFEVEVEVVNTLVVKGKVKRHGQRIGRRSDWKKAYVTLK 88
>1vq8_S 50S ribosomal protein L23P; 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: d.12.1.1 PDB:
1vq4_S* 1vq5_S* 1vq6_S* 1vq7_S* 1s72_S* 1vq9_S* 1vqk_S*
1vql_S* 1vqm_S* 1vqn_S* 1vqo_S* 1vqp_S* 1yhq_S* 1yi2_S*
1yij_S* 1yit_S* 1yj9_S* 1yjn_S* 1yjw_S* 2otj_S* ...
Length = 85
Score = 42.3 bits (100), Expect = 3e-06
Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 24/73 (32%)
Query: 28 ITEIALKTI-----------PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLI 76
+TE A+ + ASK E+ +E Y V++V T N +
Sbjct: 11 VTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDGE-------- 62
Query: 77 AKPDYKKAYVTLK 89
KKA V L
Sbjct: 63 -----KKAVVRLS 70
>3bbo_V Ribosomal protein L23; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 198
Score = 38.1 bits (88), Expect = 5e-04
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 13/53 (24%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
A K I+ + + +G +V KV TL KKAY+ L
Sbjct: 140 VRADKKMIREAISNFFGVKVRKVNTLIRPDGT-------------KKAYIMLN 179
>3u5e_X 60S ribosomal protein L25; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 2wwa_K 2ww9_K 3izc_X
3izs_X 2wwb_K 3o5h_W 3o58_W 3u5i_X 1s1i_T 3jyw_T
Length = 142
Score = 37.1 bits (86), Expect = 7e-04
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 13/53 (24%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
A+K +IK+ ++ LY +V KV TL KKAYV L
Sbjct: 88 MKANKYQIKKAVKELYEVDVLKVNTLVRPNGT-------------KKAYVRLT 127
>4a17_R RPL23A, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_R 4a1c_R 4a1e_R
Length = 150
Score = 36.8 bits (85), Expect = 0.001
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 13/53 (24%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
++K +IK E LY +V V TLN KKAY+ L
Sbjct: 96 NRSTKPQIKSAFEKLYNVKVRSVNTLNTITGN-------------KKAYIRLA 135
>3iz5_X 60S ribosomal protein L23A (L23P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_X 2go5_4 2j37_4
Length = 152
Score = 35.2 bits (81), Expect = 0.003
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 13/53 (24%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
A K +IK ++ +Y + KV T LI KKAYV L
Sbjct: 98 LKADKKKIKAAVKKMYDIQAKKVNT-------------LIRPDGKKKAYVKLT 137
>2zkr_s 60S ribosomal protein L23A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 156
Score = 35.2 bits (81), Expect = 0.004
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 13/53 (24%)
Query: 37 PSASKIEIKRVLESLYGFEVDKVRTLNMEGKKKKRGGLLIAKPDYKKAYVTLK 89
A+K +IK+ ++ LY +V KV T LI KKAYV L
Sbjct: 102 VKANKHQIKQAVKKLYDIDVAKVNT-------------LIRPDGEKKAYVRLA 141
>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 = 33.5 bits (76), Expect = 0.032
Identities = 30/145 (20%), Positives = 50/145 (34%), Gaps = 42/145 (28%)
Query: 34 KTIPSASKI--EIKRVLESLYGFEV-DKVR------TLNMEGKKKKRGGLLIAKPDYKK- 83
KT +A + + YGF + D V T++ G+K KR I + +Y
Sbjct: 1637 KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR----IRE-NYSAM 1691
Query: 84 AYVTLKNPLSLSEDLFPIRVIQDEKERMRKEKESSIVEEGKKHWLDGKQ-------VVKG 136
+ T+ + +E +F E +S +K L Q ++
Sbjct: 1692 IFETIVDGKLKTEKIFK----------EINEHSTSYTFRSEKGLLSATQFTQPALTLM-- 1739
Query: 137 NNNERSN----KKKGGF-GDVAVAG 156
E++ K KG D AG
Sbjct: 1740 ---EKAAFEDLKSKGLIPADATFAG 1761
>3nkl_A UDP-D-quinovosamine 4-dehydrogenase; alpha-beta fold, structural
genomics, PSI-2, protein structu initiative; HET: MSE
GOL; 1.90A {Vibrio fischeri}
Length = 141
Score = 30.2 bits (69), Expect = 0.19
Identities = 13/36 (36%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 27 NITEIALKTIPSASKIEIKRVLESLYGFEVDKVRTL 62
I+ + L +PSAS+++ K ++ESL V +V T+
Sbjct: 65 CISTVLL-AVPSASQVQKKVIIESLAKLHV-EVLTI 98
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 0.41
Identities = 14/65 (21%), Positives = 19/65 (29%), Gaps = 22/65 (33%)
Query: 104 IQDEKERMRK-----------------EKESSIVEEGKKHWLD-----GKQVVKGNNNER 141
+ E E +RK E E+ KK + +QV K N R
Sbjct: 80 LTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNR 139
Query: 142 SNKKK 146
K
Sbjct: 140 IADKA 144
>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 = 26.1 bits (56), Expect = 4.4
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 26 QNITEI--ALKTI-P-SASKIEIKRVLE 49
Q + ++ +LK SA + IK +E
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATME 47
Score = 25.3 bits (54), Expect = 8.3
Identities = 5/15 (33%), Positives = 9/15 (60%), Gaps = 4/15 (26%)
Query: 41 KIEIKRVLES---LY 52
K +K+ L++ LY
Sbjct: 19 KQALKK-LQASLKLY 32
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
0.314 0.133 0.373
Gapped
Lambda K H
0.267 0.0619 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,489,622
Number of extensions: 140774
Number of successful extensions: 225
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 21
Length of query: 169
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 82
Effective length of database: 4,272,666
Effective search space: 350358612
Effective search space used: 350358612
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: 42 (21.9 bits)
S2: 54 (24.8 bits)