RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033505
(118 letters)
>3iz6_R 40S ribosomal protein S15 (S19P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
2zkq_s 1s1h_S 3jyv_S*
Length = 154
Score = 192 bits (490), Expect = 7e-65
Identities = 110/118 (93%), Positives = 115/118 (97%)
Query: 1 MSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVP 60
MSTD+L +LF ARARRRFQRGLKRKPMALIKKLRKAK++AP GEKPEPVRTHLRNMIIVP
Sbjct: 37 MSTDDLVQLFPARARRRFQRGLKRKPMALIKKLRKAKKDAPAGEKPEPVRTHLRNMIIVP 96
Query: 61 EMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK 118
EMIGSI+GVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK
Sbjct: 97 EMIGSIVGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK 154
>3u5c_P 40S ribosomal protein S15; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_R 3o30_I 3o2z_I 3u5g_P 1s1h_S 3jyv_S*
Length = 142
Score = 176 bits (448), Expect = 1e-58
Identities = 79/118 (66%), Positives = 92/118 (77%), Gaps = 3/118 (2%)
Query: 1 MSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVP 60
MST++ KL AR RRRF RG+ KP +KKLR AK AP EKP PVRTH+RNMIIVP
Sbjct: 28 MSTEDFVKLAPARVRRRFARGMTSKPAGFMKKLRAAKLAAPENEKPAPVRTHMRNMIIVP 87
Query: 61 EMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK 118
EMIGS++G+YNGK FNQVEI+PEM+GHYL EFSI+Y PV+HGR G +SRFIPLK
Sbjct: 88 EMIGSVVGIYNGKAFNQVEIRPEMLGHYLGEFSITYTPVRHGRAG---ATTSRFIPLK 142
>2xzm_S RPS15E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_S 3j0o_S 3j0l_S 3j0p_S 3j0q_S
Length = 144
Score = 164 bits (418), Expect = 5e-54
Identities = 56/109 (51%), Positives = 79/109 (72%)
Query: 1 MSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVP 60
+ +DELA LF A+ RRR +RG+ K + K+R++K + P GEKP PV+TH R+MI++P
Sbjct: 33 LISDELAALFDAKTRRRVKRGISEKYAKFVNKVRRSKEKCPAGEKPVPVKTHYRSMIVIP 92
Query: 61 EMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGAT 109
E++G I+GVYNGK F VE+K +MIG YLAEF+++YKP HG+ G
Sbjct: 93 ELVGGIVGVYNGKEFVNVEVKFDMIGKYLAEFAMTYKPTTHGKTGAAGG 141
>3r8n_S 30S ribosomal protein S19; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 2ykr_S 3fih_S* 2wwl_S 3oar_S
3oaq_S 3ofb_S 3ofa_S 3ofp_S 3ofx_S 3ofy_S 3ofo_S 3r8o_S
4a2i_S 2gy9_S 2gyb_S
Length = 79
Score = 56.7 bits (138), Expect = 2e-12
Identities = 32/77 (41%), Positives = 43/77 (55%), Gaps = 7/77 (9%)
Query: 20 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 76
R LK+ P L+KK+ KA G+K +P+RT R I P MIG I V+NG+
Sbjct: 1 RSLKKGPFIDLHLLKKVEKAVES---GDK-KPLRTWSRRSTIFPNMIGLTIAVHNGRQHV 56
Query: 77 QVEIKPEMIGHYLAEFS 93
V + EM+GH L EF+
Sbjct: 57 PVFVTDEMVGHKLGEFA 73
>3i1m_S 30S ribosomal protein S19; ribosome structure, protein-RNA
complex, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
{Escherichia coli k-12} PDB: 1vs7_S* 3e1a_L 3e1c_L
1vs5_S 3i1o_S 3i1q_S 3i1s_S 3i1z_S 3i21_S 3izv_W*
3izw_W* 3kc4_S 3or9_S 3ora_S 3sfs_S* 3uoq_S* 2qal_S*
1p6g_S 1p87_S 2aw7_S ...
Length = 92
Score = 56.0 bits (136), Expect = 6e-12
Identities = 32/77 (41%), Positives = 43/77 (55%), Gaps = 7/77 (9%)
Query: 20 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 76
R LK+ P L+KK+ KA G+K +P+RT R I P MIG I V+NG+
Sbjct: 3 RSLKKGPFIDLHLLKKVEKAVES---GDK-KPLRTWSRRSTIFPNMIGLTIAVHNGRQHV 58
Query: 77 QVEIKPEMIGHYLAEFS 93
V + EM+GH L EF+
Sbjct: 59 PVFVTDEMVGHKLGEFA 75
>3bbn_S Ribosomal protein S19; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} SCOP:
i.1.1.1
Length = 92
Score = 55.6 bits (135), Expect = 9e-12
Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 20 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 76
R LK+ P L++K+ K ++ EK E + T R I+P MIG I ++NG+
Sbjct: 3 RSLKKNPFVANHLLRKIEKLNKK---AEK-EIIVTWSRASTIIPTMIGHTIAIHNGREHL 58
Query: 77 QVEIKPEMIGHYLAEFS 93
+ I M+GH L EF+
Sbjct: 59 PIYITDRMVGHKLGEFA 75
>3a1p_B 30S ribosomal protein S19; RIMM N-terminal domain, PRC-barrel
domain, beta barrels, ribosome, 30S ribosomal subunit,
ribosome biogenesis; 2.30A {Thermus thermophilus} PDB:
1fka_S 1gix_V* 1hnw_S* 1hnx_S* 1hnz_S* 1hr0_S 1ibk_S*
1ibl_S* 1ibm_S 1jgo_V* 1jgp_V* 1jgq_V* 1ml5_V* 1xmo_S*
1xmq_S* 1xnq_S* 1xnr_S* 1yl4_V 2b64_S* 2b9m_S* ...
Length = 93
Score = 54.8 bits (133), Expect = 2e-11
Identities = 30/77 (38%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 20 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 76
R LK+ L++K+ + + GEK ++T R IVPEM+G I VYNGK
Sbjct: 3 RSLKKGVFVDDHLLEKVLELNAK---GEK-RLIKTWSRRSTIVPEMVGHTIAVYNGKQHV 58
Query: 77 QVEIKPEMIGHYLAEFS 93
V I M+GH L EF+
Sbjct: 59 PVYITENMVGHKLGEFA 75
>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 = 31.9 bits (72), Expect = 0.038
Identities = 20/96 (20%), Positives = 30/96 (31%), Gaps = 36/96 (37%)
Query: 28 ALIKKLRKAKREAPPG----------EKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQ 77
L LRKAK AP G K + L + P F+
Sbjct: 388 GLNLTLRKAK--APSGLDQSRIPFSERKLKFSNRFLP--VASP--------------FHS 429
Query: 78 VEIKP--EMIGHYLAEFSISYK------PVKHGRPG 105
+ P ++I L + ++S+ PV G
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
Score = 27.7 bits (61), Expect = 0.94
Identities = 22/142 (15%), Positives = 35/142 (24%), Gaps = 53/142 (37%)
Query: 1 MSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPP-------GEKPEPVRTHL 53
M D S A+ + R + P GEK + +R +
Sbjct: 1631 MGMDLYKT--SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 54 RNMII----------------VPEMIGSIIGVYNG------KT-FNQV-----------E 79
MI + E S + T F Q +
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYT--FRSEKGLLSATQFTQPALTLMEKAAFED 1746
Query: 80 IKPE--------MIGHYLAEFS 93
+K + GH L E++
Sbjct: 1747 LKSKGLIPADATFAGHSLGEYA 1768
Score = 27.3 bits (60), Expect = 1.2
Identities = 16/89 (17%), Positives = 29/89 (32%), Gaps = 31/89 (34%)
Query: 1 MSTDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVP 60
MS + L ++ F RG + A P + E R++ + I P
Sbjct: 1777 MSIESLVEVV-------FYRG-------------MTMQVAVPRD--ELGRSNYGMIAINP 1814
Query: 61 EMIGS---------IIGVYNGKTFNQVEI 80
+ + ++ +T VEI
Sbjct: 1815 GRVAASFSQEALQYVVERVGKRTGWLVEI 1843
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 27.9 bits (61), Expect = 0.85
Identities = 20/125 (16%), Positives = 42/125 (33%), Gaps = 22/125 (17%)
Query: 1 MSTDELAKLFSA-----RARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVRTHLRN 55
+S +E+ + + R F L K +++K + P++T R
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWT-LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ 104
Query: 56 MIIVPEMIGSIIGVYNGKTFNQVEI-------KPEMIGHYLAEFSISYKPVK----HGRP 104
P M+ + + +N ++ + + L + + +P K G
Sbjct: 105 ----PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY-LKLRQALLELRPAKNVLIDGVL 159
Query: 105 GIGAT 109
G G T
Sbjct: 160 GSGKT 164
>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus;
HET: SAM; 2.90A {Homo sapiens}
Length = 222
Score = 26.5 bits (59), Expect = 2.3
Identities = 19/110 (17%), Positives = 34/110 (30%), Gaps = 34/110 (30%)
Query: 16 RRFQRGLKRKPMALIKKLRK-----AKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVY 70
+R QR + + + K K G+ II E +G ++
Sbjct: 65 QRIQRHEWVQCLERFRAEEKGWGIRTKEPLKAGQ-----------FII--EYLGEVV--- 108
Query: 71 NGKTFN--QVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHS---SRFI 115
+ + F +E HY ++ V I + +RFI
Sbjct: 109 SEQEFRNRMIEQYHNHSDHYC--LNLDSGMV------IDSYRMGNEARFI 150
>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 = 25.7 bits (55), Expect = 3.5
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 30 IKKLRKAKREAPPGEKP 46
+KKL+ + + P
Sbjct: 22 LKKLQASLKLYADDSAP 38
>2x3n_A Probable FAD-dependent monooxygenase; oxidoreductase; HET: FAD;
1.75A {Pseudomonas aeruginosa}
Length = 399
Score = 25.7 bits (57), Expect = 4.3
Identities = 8/47 (17%), Positives = 13/47 (27%)
Query: 3 TDELAKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPV 49
LA R R + + + +R P P P+
Sbjct: 352 GHALATSLEDRQRFAGVFDTALQGSSRTPEALGGERSYQPVRSPAPL 398
>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase
complex; HET: 3TL; 1.70A {Feline immunodeficiency
virus} PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A*
5fiv_A* 4fiv_A* 1fiv_A* 1b11_A*
Length = 116
Score = 25.0 bits (54), Expect = 5.7
Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 2/30 (6%)
Query: 58 IVPEMIGSIIGVYNGKTFNQVEIKPEMIGH 87
+MIG I G G + V + E+
Sbjct: 51 NGRQMIGGIGGFIRGTNYINVHL--EIRDE 78
>3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human
immunodeficiency virus type 2} SCOP: b.50.1.1 PDB:
1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A*
3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A
3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ...
Length = 99
Score = 24.3 bits (53), Expect = 6.6
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 60 PEMIGSIIGVYNGKTFNQVEIKPEMIGH 87
P+++G I G N K + VEI E++
Sbjct: 44 PKIVGGIGGFINTKEYKNVEI--EVLNK 69
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 0.138 0.401
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,924,032
Number of extensions: 111996
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 363
Number of HSP's successfully gapped: 40
Length of query: 118
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 37
Effective length of database: 4,440,192
Effective search space: 164287104
Effective search space used: 164287104
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 (23.6 bits)