RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14541
(103 letters)
>3bn0_A 30S ribosomal protein S16; ribonucleoprotein, ribosome; 2.00A
{Aquifex aeolicus} SCOP: d.27.1.1
Length = 112
Score = 50.4 bits (121), Expect = 1e-09
Identities = 15/104 (14%), Positives = 35/104 (33%), Gaps = 22/104 (21%)
Query: 1 MRRNDQPIEQLGTFDPLPNEYQEKLVSLNIERIRYWLGT----SDIHITSPVRELFGLAG 56
R + I+ LGT+DP ++ L+++ E+++ W+ S + + G
Sbjct: 27 SPREGKYIDILGTYDPK----RKVLINVYPEKVKEWVLKGVELSH-----RAKAILWNHG 77
Query: 57 LFPIYHRTYMNAWRNRNKAEAEIEKQKQEKLKAEQEANQDKEAA 100
+ +++ + + EAA
Sbjct: 78 ILKEVVP------EGYEMKRVGDYYVFEKRESKKSKG---GEAA 112
>3bbn_P Ribosomal protein S16; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 88
Score = 47.6 bits (114), Expect = 7e-09
Identities = 12/67 (17%), Positives = 29/67 (43%), Gaps = 14/67 (20%)
Query: 1 MRRNDQPIEQLGTFDPLPNEYQEKLVSLNIERIRYWLGT----SDIHITSPVRELFGLAG 56
RR + ++++G +DP+ ++ LN+ I +L ++ V ++ A
Sbjct: 26 SRREGRDLQKVGFYDPIKSQ-----TYLNVPAILDFLEKGAQPTE-----TVYDILKRAE 75
Query: 57 LFPIYHR 63
+F +
Sbjct: 76 VFKEFRL 82
>3pys_P 30S ribosomal protein S16; ribosome, IGR, IRES, PSIV, CRPV; 3.40A
{Thermus thermophilus} PDB: 1pnx_P 1voq_P 1vos_P 1vov_P
1vox_P 1voz_P 1pns_P 3ms0_P 3mr8_P 3pyq_P 3pyn_P 3pyu_P
3fic_P* 1emw_A 1fjg_P* 1hnw_P* 1hnx_P* 1hnz_P* 1hr0_P
1i94_P* ...
Length = 83
Score = 45.6 bits (109), Expect = 4e-08
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 11/63 (17%)
Query: 1 MRRNDQPIEQLGTFDPLPNEYQEKLVSLNIERIRYWLGT----SDIHITSPVRELFGLAG 56
+R+ + IE++G +DP + +++ER RYWL +D R L AG
Sbjct: 26 RKRDGKYIEKIGYYDPRKTT--PDWLKVDVERARYWLSVGAQPTD-----TARRLLRQAG 78
Query: 57 LFP 59
+F
Sbjct: 79 VFR 81
>3r8n_P 30S ribosomal protein S16; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 1p6g_P 1p87_P* 1vs7_P* 2avy_P
2aw7_P 1vs5_P 2i2u_P 2i2p_P* 2qan_P* 2qb9_P* 2qbb_P*
2qbd_P 2qbf_P 2qbh_P* 2qbj_P* 2qou_P* 2qow_P* 2qoy_P*
2qp0_P* 2vho_P ...
Length = 82
Score = 44.8 bits (107), Expect = 7e-08
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 10/61 (16%)
Query: 1 MRRNDQPIEQLGTFDPLPNEYQEKLVSLNIERIRYWLGT----SDIHITSPVRELFGLAG 56
RN + IE++G F+P+ +E +E+ L+++RI +W+G SD V L
Sbjct: 26 NARNGRFIERVGFFNPIASE-KEEGTRLDLDRIAHWVGQGATISDR-----VAALIKEVN 79
Query: 57 L 57
Sbjct: 80 K 80
>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 = 28.0 bits (61), Expect = 0.45
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 4/24 (16%)
Query: 80 EKQKQEKLKAEQEANQDKEAASSA 103
EKQ +KL +A+ A SA
Sbjct: 18 EKQALKKL----QASLKLYADDSA 37
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 0.48
Identities = 6/35 (17%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 66 MNAWRNRNKAEAEIEKQKQEKLKAE--QEANQDKE 98
+ WR + + + ++ E ++A +D E
Sbjct: 87 IRKWREEQRKRLQELDAASKVMEQEWREKAKKDLE 121
Score = 27.4 bits (60), Expect = 0.63
Identities = 7/32 (21%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 72 RNKAEAEIE---KQKQEKLKAEQEANQDKEAA 100
R KA+ ++E +++ E+++ + N+ + A
Sbjct: 113 REKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144
Score = 27.0 bits (59), Expect = 1.0
Identities = 7/38 (18%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 63 RTYMNAW-RNRNKAEAEIEKQKQEKLKAEQEANQDKEA 99
+ + W + +++ ++EK K A++ Q +A
Sbjct: 117 KKDLEEWNQRQSE---QVEKNKINNRIADKAFYQQPDA 151
>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 = 26.9 bits (59), Expect = 1.3
Identities = 14/83 (16%), Positives = 29/83 (34%), Gaps = 29/83 (34%)
Query: 22 QEKLVSLNIERIRYWL-GTSDIHI-----------TSPVRELFGLAGLFPIYHRTYMNAW 69
QE++ + + L + I + P + L+GL N
Sbjct: 346 QEQVQDY-VNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL------------NLT 392
Query: 70 RNRNKAEAEIEKQK----QEKLK 88
+ KA + +++ + + KLK
Sbjct: 393 LRKAKAPSGLDQSRIPFSERKLK 415
>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 = 27.1 bits (59), Expect = 1.3
Identities = 10/81 (12%), Positives = 25/81 (30%), Gaps = 24/81 (29%)
Query: 18 PNEYQEKLVSLNIERIRYWLGTSDIHITSPVRELFGLAGLFPIYHRTYMNAWRNRNKAEA 77
P EY++ L++ HI + + L W + K++
Sbjct: 368 PAEYRKMFDRLSVFP-------PSAHIPTILLSLI----------------WFDVIKSDV 404
Query: 78 E-IEKQKQEKLKAEQEANQDK 97
+ + + E++ +
Sbjct: 405 MVVVNKLHKYSLVEKQPKEST 425
>1sbo_A Putative anti-sigma factor antagonist TM1442; open sandwich, JCSG,
structural genomics, joint center for structural
genomics, PSI; NMR {Thermotoga maritima} SCOP: c.13.2.1
PDB: 1t6r_A* 1vc1_A
Length = 110
Score = 24.1 bits (53), Expect = 6.5
Identities = 4/23 (17%), Positives = 7/23 (30%), Gaps = 3/23 (13%)
Query: 42 IHITSPVRELFGLAGL---FPIY 61
+ + + L L F I
Sbjct: 82 SSLKESISRILKLTHLDKIFKIT 104
>1uf3_A Hypothetical protein TT1561; metallo-dependent phosphatases,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.10A {Thermus
thermophilus} SCOP: d.159.1.6
Length = 228
Score = 24.7 bits (53), Expect = 6.5
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 31 ERIRYWLGTSDIH 43
+RY L TS+
Sbjct: 3 RTVRYILATSNPM 15
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 24.4 bits (54), Expect = 7.8
Identities = 8/12 (66%), Positives = 10/12 (83%), Gaps = 1/12 (8%)
Query: 7 PIEQLGTFDPLP 18
P+EQ GT+ PLP
Sbjct: 159 PVEQEGTY-PLP 169
>2ka5_A Putative anti-sigma factor antagonist TM_1081; termotoga marithima,
phosphoprotein, structural GENO PSI-2, protein structure
initiative; NMR {Thermotoga maritima} PDB: 3f43_A*
Length = 125
Score = 24.2 bits (53), Expect = 8.0
Identities = 5/23 (21%), Positives = 7/23 (30%), Gaps = 3/23 (13%)
Query: 42 IHITSPVRELFGLAGL---FPIY 61
+ V + L L IY
Sbjct: 90 VSPNEKVERVLSLTNLDRIVKIY 112
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle
dysfunction, inhibitor design, allosteric enzyme,
alternative splicing, CGMP binding; HET: WAN; 2.00A
{Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A
2k31_A*
Length = 878
Score = 24.8 bits (53), Expect = 8.2
Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 3/52 (5%)
Query: 48 VRELF-GLAGLFPIYHRTYMNAWRNRNKAEAEIEKQKQEKLKAEQEANQDKE 98
+L+ L + +NR K +A E+ QEK+ E+ Q K
Sbjct: 828 CLQLYEALTHVSEDCFPLLDGCRKNRQKWQALAEQ--QEKMLINGESGQAKR 877
>3l84_A Transketolase; TKT, structural genomics, center for structur
genomics of infectious diseases, csgid, transferase;
HET: MSE; 1.36A {Campylobacter jejuni} PDB: 3m6l_A*
3m34_A* 3m7i_A*
Length = 632
Score = 24.3 bits (54), Expect = 8.5
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 6 QPIEQLGTFDPLPN 19
QPIEQL TF +PN
Sbjct: 454 QPIEQLSTFRAMPN 467
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 0.130 0.376
Gapped
Lambda K H
0.267 0.0545 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,536,125
Number of extensions: 80239
Number of successful extensions: 301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 288
Number of HSP's successfully gapped: 53
Length of query: 103
Length of database: 6,701,793
Length adjustment: 68
Effective length of query: 35
Effective length of database: 4,803,165
Effective search space: 168110775
Effective search space used: 168110775
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.8 bits)