RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033365
(121 letters)
>3r8s_L 50S ribosomal protein L15; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_L 2wwq_L 3oat_L* 3oas_L* 3ofd_L 3ofc_L 3ofr_L*
3ofz_L* 3og0_L 3ofq_L 3r8t_L 3i1n_L 1p85_J 1p86_J 1vs8_L
1vs6_L 2aw4_L 2awb_L 1vt2_L 2i2v_L ...
Length = 143
Score = 48.6 bits (117), Expect = 1e-08
Identities = 21/54 (38%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 1 MKTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
+ TLK A IG QI + +++ G ++ P+ + RVT A+AA+EAAGG +
Sbjct: 91 LNTLKAANIIGIQI-EFAKVILAG--EVTTPVTVRGLRVTKGARAAIEAAGGKI 141
>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J* 1sm1_J*
1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I* 3pio_I*
3pip_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M 1voy_M 1vp0_M
Length = 156
Score = 44.8 bits (107), Expect = 4e-07
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
TL+ + ++ V+L+ G +I + + + A AVEAAGG V
Sbjct: 91 DTLEAYRLVRRKN-RPVKLLASG--EISRAVTVHVDAASAAAIKAVEAAGGRV 140
>3v2d_P 50S ribosomal protein L15; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_J 2hgj_O 2hgq_O 2hgu_O 1vsa_J 2j03_P 2jl6_P 2jl8_P
2v47_P 2v49_P 2wdi_P 2wdj_P 2wdl_P 2wdn_P 2wh2_P 2wh4_P
2wrj_P 2wrl_P 2wro_P 2wrr_P ...
Length = 150
Score = 42.1 bits (100), Expect = 4e-06
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
+ L AG + K ++++G G K P+ + A + A ++AAGG
Sbjct: 98 ELLVRAGLLKKG--YRLKILGEGEAK---PLKVVAHAFSKSALEKLKAAGGEP 145
>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 41.4 bits (97), Expect = 2e-05
Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 1 MKTLKDAGAIGKQIE---DGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
++TLK I ++++ G ++ + ++A + AK +E AG S+
Sbjct: 163 LETLKAKRVINPSGRERKLPLKILADG--ELSKKLTIKAGAFSTSAKEKLEYAGCSL 217
>1vq8_L 50S ribosomal protein L15P; 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: c.12.1.1 PDB: 1vq4_L*
1vq5_L* 1vq6_L* 1vq7_L* 1s72_L* 1vq9_L* 1vqk_L* 1vql_L*
1vqm_L* 1vqn_L* 1vqo_L* 1vqp_L* 1yhq_L* 1yi2_L* 1yij_L*
1yit_L* 1yj9_L* 1yjn_L* 1yjw_L* 2otj_L* ...
Length = 165
Score = 34.4 bits (79), Expect = 0.004
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 16 DGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
D V+++G G +++ + L A + A+ VE AGGSV
Sbjct: 105 DYVKVLGAG--QVRHELTLIADDFSEGAREKVEGAGGSV 141
>3iz5_O 60S ribosomal protein L27A (L15P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_O
Length = 144
Score = 31.2 bits (70), Expect = 0.037
Identities = 13/53 (24%), Positives = 26/53 (49%)
Query: 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
A I +++G+G + PI ++A ++ A+ ++AAGG+V
Sbjct: 88 AGAGKAPVIDVTQFGYTKVLGKGMLPPERPIVVKAKLISKVAEKKIKAAGGAV 140
>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 = 29.6 bits (66), Expect = 0.27
Identities = 14/78 (17%), Positives = 27/78 (34%), Gaps = 23/78 (29%)
Query: 39 VTVRAK----AAVEAAGGSVRRVHYNK---------LGLRALLKPEWFEKKGRLLPRPAR 85
T ++ A A S + +G+R E + P +
Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY---EAY-------PNTSL 319
Query: 86 PPPKLQDKVDSIGRLPAP 103
PP L+D +++ +P+P
Sbjct: 320 PPSILEDSLENNEGVPSP 337
Score = 26.6 bits (58), Expect = 2.4
Identities = 18/93 (19%), Positives = 26/93 (27%), Gaps = 36/93 (38%)
Query: 7 AGAIGKQIEDGVRL----------------MGRGA--------EKIKWPIHLEASRVTVR 42
A + IE V + +GR ++ EA + V
Sbjct: 1774 ADVM--SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVE 1831
Query: 43 AKAAVEAAGGSVRRVHYNKLG--------LRAL 67
+ G V V+YN LRAL
Sbjct: 1832 RVG--KRTGWLVEIVNYNVENQQYVAAGDLRAL 1862
>2idb_A 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; alpha-beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: 1PE; 2.90A {Escherichia coli} SCOP: b.45.1.3
d.333.1.1
Length = 505
Score = 29.4 bits (66), Expect = 0.29
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 61 KLGLRALLKPEWFEKKGRLLPRPARPPPKLQDKVDSI 97
K+GL A K W + R RP + P + +D+I
Sbjct: 450 KMGLDATNK--WPGETQREWGRPIKKDPDVVAHIDAI 484
>2ze3_A DFA0005; organic waste LEFT-OVER decomposition, alkaliphilic,
ICL/PEPM superfamily, alpha-ketoglutarate LIG isomerase;
HET: AKG; 1.65A {Deinococcus ficus}
Length = 275
Score = 27.6 bits (62), Expect = 0.99
Identities = 9/50 (18%), Positives = 14/50 (28%), Gaps = 8/50 (16%)
Query: 1 MKTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAA 50
++ G G +ED L + R +AA A
Sbjct: 98 VEHFAALGVAGVNLEDATGLTPTE--------LYDLDSQLRRIEAARAAI 139
>4a17_K L29, RPL27A, 60S ribosomal protein L27A; eukaryotic ribosome,
ribosome, eukaryotic initiation factor 60S, translation,
large ribosomal subunit; 3.52A {Tetrahymena thermophila}
PDB: 4a1a_K 4a1c_K 4a1e_K
Length = 149
Score = 26.6 bits (58), Expect = 1.9
Identities = 8/53 (15%), Positives = 18/53 (33%)
Query: 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
K + + G + P+ ++A + A+ + A GG+
Sbjct: 93 AEDKKKVPVIDVTKAGFFKVLGKGRLPNQPVVVKAKYFSKTAERRIVAVGGAC 145
>2qiw_A PEP phosphonomutase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: P6G; 1.80A {Corynebacterium glutamicum atcc
13032}
Length = 255
Score = 26.5 bits (59), Expect = 2.1
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 8/49 (16%)
Query: 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAA 50
+ +AGA+G +ED V G+ A + AA +AA
Sbjct: 100 AQILEAGAVGINVEDVVHSEGKRV----REAQEHADYI----AAARQAA 140
>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 = 26.7 bits (58), Expect = 2.1
Identities = 8/53 (15%), Positives = 15/53 (28%), Gaps = 7/53 (13%)
Query: 39 VTVRAKAAVEAAGGSVRRVHYNKLGLRALLKPE-------WFEKKGRLLPRPA 84
+T R K + + L E + + + + LPR
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV 322
>2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 148
Score = 24.7 bits (53), Expect = 7.5
Identities = 9/36 (25%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 19 RLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV 54
+++G+G + K P+ ++A + RA+ +++ GG+
Sbjct: 110 KVLGKG-KLPKQPVIVKAKFFSRRAEEKIKSVGGAC 144
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
0.316 0.135 0.401
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,968,156
Number of extensions: 113933
Number of successful extensions: 320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 320
Number of HSP's successfully gapped: 24
Length of query: 121
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 39
Effective length of database: 4,412,271
Effective search space: 172078569
Effective search space used: 172078569
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 (21.6 bits)
S2: 51 (23.9 bits)