RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 043054
(90 letters)
>3iz5_I 60S ribosomal protein L10 (L10E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_I 1s1i_I 3jyw_I
Length = 224
Score = 107 bits (269), Expect = 4e-31
Identities = 48/71 (67%), Positives = 57/71 (80%)
Query: 20 EALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRIVPDGMNAKLFGCHGPLADR 79
EALRRAKFKFP RQKII SRKWGFTKF+R +Y++ +E RI+ DG+NA+L G HG LA R
Sbjct: 150 EALRRAKFKFPGRQKIIHSRKWGFTKFTREEYVKLKAEGRIMSDGVNAQLLGSHGRLAKR 209
Query: 80 QPGRAFLEATI 90
PG+AFL TI
Sbjct: 210 APGKAFLAETI 220
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_H 4a1c_H 4a1e_H
Length = 215
Score = 102 bits (254), Expect = 6e-29
Identities = 32/65 (49%), Positives = 44/65 (67%)
Query: 20 EALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRIVPDGMNAKLFGCHGPLADR 79
+AL RAK KFP RQK++ S+KWGFTK +RA Y R ++ ++V DG N K+ G GPL+
Sbjct: 150 DALTRAKAKFPGRQKVVTSQKWGFTKLTRAQYSRLRNQKKLVTDGSNVKVIGERGPLSRL 209
Query: 80 QPGRA 84
+ R
Sbjct: 210 ELFRK 214
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 99.8 bits (248), Expect = 5e-28
Identities = 32/65 (49%), Positives = 42/65 (64%)
Query: 20 EALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRIVPDGMNAKLFGCHGPLADR 79
EALRRAKFKFP RQKI +S+KWGFTKF+ ++ +E R++PDG K GPL
Sbjct: 150 EALRRAKFKFPGRQKIHISKKWGFTKFNADEFENMVAEKRLIPDGCGVKYIPNRGPLDKW 209
Query: 80 QPGRA 84
+ +
Sbjct: 210 RALHS 214
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle,
tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB:
3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I
Length = 219
Score = 95.9 bits (238), Expect = 1e-26
Identities = 26/60 (43%), Positives = 35/60 (58%)
Query: 19 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRIVPDGMNAKLFGCHGPLAD 78
E LRRA++KFP +QKII+S+KWGFT R +YL+ + DG K G L +
Sbjct: 147 VEGLRRARYKFPGQQKIILSKKWGFTNLDRPEYLKKREAGEVKDDGAFVKFLSKKGSLEN 206
>2pa2_A 60S ribosomal protein L10; QM protein, , structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.50A {Homo sapiens} SCOP: d.41.4.1
Length = 151
Score = 67.4 bits (164), Expect = 5e-16
Identities = 23/33 (69%), Positives = 28/33 (84%)
Query: 19 QEALRRAKFKFPVRQKIIVSRKWGFTKFSRADY 51
EALRRAKFKFP RQKI +S+KWGFTKF+ ++
Sbjct: 118 IEALRRAKFKFPGRQKIHISKKWGFTKFNADEF 150
>1ffk_F Ribosomal protein L10E; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
d.41.4.1 PDB: 1jj2_H 1k73_J* 1k8a_J* 1k9m_J* 1kc8_J*
1kd1_J* 1kqs_H* 1m1k_J* 1m90_J* 1n8r_J* 1nji_J* 1q7y_J*
1q81_J* 1q82_J* 1q86_J* 1qvf_H 1qvg_H 1w2b_H 3cxc_H*
1giy_P ...
Length = 157
Score = 44.6 bits (105), Expect = 2e-07
Identities = 7/22 (31%), Positives = 8/22 (36%)
Query: 19 QEALRRAKFKFPVRQKIIVSRK 40
+ A RRA K I S
Sbjct: 133 EFAWRRAYMKVTPTVNIDSSPA 154
>1vq8_H 50S ribosomal protein L10E; 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.41.4.1 PDB: 1vq4_H*
1vq5_H* 1vq6_H* 1vq7_H* 1s72_H* 1vq9_H* 1vqk_H* 1vql_H*
1vqm_H* 1vqn_H* 1vqo_H* 1vqp_H* 2otj_H* 2otl_H* 2qa4_H*
2qex_H* 1yhq_H* 1yi2_H* 1yij_H* 1yit_H* ...
Length = 171
Score = 42.8 bits (100), Expect = 2e-06
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 19 QEALRRAKFKFPVRQKIIVS 38
+EA RRA K +I S
Sbjct: 147 KEAFRRAYNKITPSCRIDSS 166
>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, thermostability;
2.00A {Geobacillus stearothermophilus} SCOP: b.71.1.1
c.1.8.1
Length = 515
Score = 29.0 bits (65), Expect = 0.18
Identities = 16/55 (29%), Positives = 21/55 (38%)
Query: 6 VNPIPSRPIANPTQEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRI 60
VNP + T + KF FP R S KW + F D+ +RI
Sbjct: 121 VNPSDRNQEISGTYQIQAWTKFDFPGRGNTYSSFKWRWYHFDGVDWDESRKLSRI 175
>1v33_A DNA primase small subunit; nucleotidyl transferase, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: DNA; 1.80A {Pyrococcus
horikoshii} SCOP: d.264.1.1 PDB: 1v34_A* 1g71_A*
Length = 366
Score = 28.8 bits (63), Expect = 0.19
Identities = 10/57 (17%), Positives = 18/57 (31%), Gaps = 8/57 (14%)
Query: 8 PIPSRPIANPTQEALRRAKFK--FPVRQ------KIIVSRKWGFTKFSRADYLRWNS 56
P S + R+ + + V+ K + R++GF R N
Sbjct: 16 PRGSHMLLREVTREERKNFYTNEWKVKDIPDFIVKTLELREFGFDHSGEGPSDRKNQ 72
>2zjr_J 50S ribosomal protein L16; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.41.4.2 PDB: 1sm1_K* 2zjp_J* 2zjq_J
1nkw_K 3cf5_J* 3dll_J* 3pio_J* 1njm_K* 1nwx_K* 1njp_K*
1xbp_K* 1y69_K 1nwy_K* 3pip_J* 1pnu_K 1pny_K 1vor_N
1vou_N 1vow_N 1voy_N ...
Length = 142
Score = 28.0 bits (62), Expect = 0.29
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 19 QEALRRAKFKFPVRQKIIVSRKW 41
+EA R A K P++ K++ +
Sbjct: 116 KEAFRLAGHKLPIQTKMVKREVY 138
>3bh4_A Alpha-amylase; calcium, carbohydrate metabolism, glycosidase,
hydrolase, metal-binding, secreted; 1.40A {Bacillus
amyloliquefaciens} PDB: 1e43_A 1e3z_A* 1e40_A* 1e3x_A
1vjs_A 1ob0_A 1bli_A 1bpl_B 1bpl_A
Length = 483
Score = 27.1 bits (60), Expect = 0.73
Identities = 14/55 (25%), Positives = 20/55 (36%)
Query: 6 VNPIPSRPIANPTQEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRI 60
VNP + + F+FP R KW + F AD+ +RI
Sbjct: 118 VNPANRNQETSEEYQIKAWTDFRFPGRGNTYSDFKWHWYHFDGADWDESRKISRI 172
>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 = 27.3 bits (60), Expect = 0.79
Identities = 15/92 (16%), Positives = 24/92 (26%), Gaps = 29/92 (31%)
Query: 11 SRPIANPTQEALRRAKFKFPV------RQKIIVSRKWGFTKFSRADYLR----------- 53
P P ++ L P+ ++ ++ GFT YL+
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT 279
Query: 54 ---------WNSENRIVPDGMNAKLF--GCHG 74
W S V + LF G
Sbjct: 280 AVAIAETDSWESFFVSVRKAITV-LFFIGVRC 310
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M
2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M
2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Length = 136
Score = 26.9 bits (59), Expect = 0.80
Identities = 5/19 (26%), Positives = 10/19 (52%)
Query: 19 QEALRRAKFKFPVRQKIIV 37
+EA + A K P++ +
Sbjct: 114 REAFKLAAAKLPIKTTFVT 132
>3bc9_A AMYB, alpha amylase, catalytic region; acarbose, thermostable,
halophilic, N domain, starch binding, hydrolase; HET:
G6D GLC ACI BGC ACR; 1.35A {Halothermothrix orenii} PDB:
3bcd_A* 3bcf_A
Length = 599
Score = 26.8 bits (59), Expect = 0.94
Identities = 10/45 (22%), Positives = 15/45 (33%)
Query: 16 NPTQEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRI 60
P Q F FP R + W F D+ ++ E+
Sbjct: 252 KPGQYIKAWTGFNFPGRNGEYSNFTWNGQCFDGTDWDDYSKESGK 296
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 135
Score = 26.1 bits (57), Expect = 1.2
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 19 QEALRRAKFKFPVRQKIIV 37
+ A+ A K P+R + I+
Sbjct: 115 RRAVAIAASKMPIRTQFII 133
>1z3x_A Putative cytidyltransferase; transferase activator; 1.50A
{Thermosynechococcus elongatus} SCOP: a.118.1.22
a.261.1.1 PDB: 1z3y_A
Length = 238
Score = 25.9 bits (56), Expect = 1.7
Identities = 4/34 (11%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 26 KFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENR 59
+F + V++++ + + + + + W R
Sbjct: 165 RFGYSVQRQLWLGCGQNWDRL--WEKIGWRQGKR 196
>1ud2_A Amylase, alpha-amylase; calcium-free, alkaline, hydrolase; 2.13A
{Bacillus SP} SCOP: b.71.1.1 c.1.8.1 PDB: 1ud4_A 1ud5_A
1ud6_A 1ud8_A 1ud3_A
Length = 480
Score = 25.6 bits (56), Expect = 2.9
Identities = 13/55 (23%), Positives = 18/55 (32%)
Query: 6 VNPIPSRPIANPTQEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRI 60
VNP + F F R KW + F+ D+ + EN I
Sbjct: 120 VNPTNRWQDISGAYTIDAWTGFDFSGRNNAYSDFKWRWFHFNGVDWDQRYQENHI 174
>1wpc_A Glucan 1,4-alpha-maltohexaosidase; maltohexaose-producing amylase,
alpha-amylase, acarbose, HYD; HET: ACI GLC GAL; 1.90A
{Bacillus SP} SCOP: b.71.1.1 c.1.8.1 PDB: 1wp6_A*
2d3l_A* 2d3n_A* 2die_A 2gjp_A* 2gjr_A 1w9x_A*
Length = 485
Score = 25.2 bits (55), Expect = 3.4
Identities = 13/53 (24%), Positives = 17/53 (32%)
Query: 6 VNPIPSRPIANPTQEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSEN 58
VNP +F FP R S KW + F D+ + N
Sbjct: 122 VNPNNRNQEVTGEYTIEAWTRFDFPGRGNTHSSFKWRWYHFDGVDWDQSRRLN 174
>1zt2_A DNA primase small subunit; heterodimeric complex, replication,
transferase; HET: DNA; 3.33A {Sulfolobus solfataricus}
SCOP: d.264.1.1
Length = 330
Score = 25.2 bits (54), Expect = 3.8
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 39 RKWGFTKFSRADYLRWNS 56
R++ F Y+R S
Sbjct: 36 REFALQPFGSDTYVRHLS 53
>1y6i_A Mg-chelatase cofactor GUN4; helix-bundle, porphyrin binding, ligand
binding protein; 1.78A {Synechocystis SP} SCOP:
a.118.1.22 a.261.1.1
Length = 233
Score = 24.8 bits (53), Expect = 4.2
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 26 KFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRIVPD 63
F F V++++ ++ FTK + W S N
Sbjct: 157 NFGFSVQRRLWLASGKEFTKL--WPKIGWKSGNVWTRW 192
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 24.9 bits (54), Expect = 4.3
Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 11/68 (16%)
Query: 3 LGLVNPIPSRPIANPTQEALRRAKFKFPVRQKIIVSRKWGFTKFSRADYLRWNSENRIVP 62
L ++N + + RR F ++ WGF+ F + + I
Sbjct: 100 LKIINYR------DDEKSFSRRISHLFFHKE-----NDWGFSNFMAWSEVTDPEKGFIDD 148
Query: 63 DGMNAKLF 70
D + ++F
Sbjct: 149 DKVTFEVF 156
>2je2_A Cytochrome P460; heme P460, cross-linked heme, metal binding
protein; HET: HEC; 1.8A {Nitrosomonas europaea} PDB:
2je3_A*
Length = 186
Score = 24.7 bits (53), Expect = 5.5
Identities = 8/39 (20%), Positives = 10/39 (25%), Gaps = 4/39 (10%)
Query: 41 WGFTKFSRADYLRWNSENRIVPDGMNAKLFGCHGPLADR 79
W F F D + A+ CH A
Sbjct: 113 WAFYIFYVPD----TPLVAAAKNLPTAECAACHKENAKT 147
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13,
mitochondrial; mitochondrial ribosome, large ribosomal
subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB:
3iy9_I
Length = 118
Score = 23.8 bits (51), Expect = 7.4
Identities = 6/26 (23%), Positives = 8/26 (30%)
Query: 9 IPSRPIANPTQEALRRAKFKFPVRQK 34
+ R Q L + K P K
Sbjct: 93 MGGRCEFEEVQGFLDQVAHKLPFAAK 118
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
0.324 0.140 0.446
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,437,099
Number of extensions: 71511
Number of successful extensions: 184
Number of sequences better than 10.0: 1
Number of HSP's gapped: 184
Number of HSP's successfully gapped: 25
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (23.9 bits)