RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 028409
(209 letters)
>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein;
NMR {Saccharomyces cerevisiae}
Length = 108
Score = 79.9 bits (197), Expect = 6e-20
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 1/84 (1%)
Query: 95 GKIKKKERQEVVIEKVVRNKRKCITIVKGLDLFGVKLSDASKKLGKKFATGASVVKGPTE 154
G + + I RN RK +T V+G+ L K L K FA ++VK P
Sbjct: 16 GDDETATSNYIHIRIQQRNGRKTLTTVQGVPE-EYDLKRILKVLKKDFACNGNIVKDPEM 74
Query: 155 KEQIDVQGDISYDIVEFITDTWPA 178
E I +QGD + EF+
Sbjct: 75 GEIIQLQGDQRAKVCEFMISQLGL 98
>2if1_A EIF1, SUI1; translation initiation factor; NMR {Homo sapiens} SCOP:
d.64.1.1
Length = 126
Score = 78.4 bits (193), Expect = 4e-19
Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 1/83 (1%)
Query: 93 PGGKIKKKERQEVVIEKVVRNKRKCITIVKGLDLFGVKLSDASKKLGKKFATGASVVKGP 152
+ + I RN RK +T V+G+ K KKFA +V++ P
Sbjct: 32 GDDLLPAGTEDYIHIRIQQRNGRKTLTTVQGIA-DDYDKKKLVKAFKKKFACNGTVIEHP 90
Query: 153 TEKEQIDVQGDISYDIVEFITDT 175
E I +QGD +I +F+ +
Sbjct: 91 EYGEVIQLQGDQRKNICQFLVEI 113
>2xzm_F EIF1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_F
Length = 101
Score = 74.5 bits (183), Expect = 8e-18
Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 1/76 (1%)
Query: 100 KERQEVVIEKVVRNKRKCITIVKGLDLFGVKLSDASKKLGKKFATGASVVKGPTEKEQID 159
+ + I R RKC T V+G+ K K + A++V+ K+ I
Sbjct: 14 DFQTHIHIRVEQRRGRKCFTTVEGIPP-EFDYEKIMKYWKKWLSCNATIVEEDEGKKVIK 72
Query: 160 VQGDISYDIVEFITDT 175
+ GD I +F+++
Sbjct: 73 LNGDHRNQIQQFLSEE 88
>1d1r_A Hypothetical 11.4 KD protein YCIH in PYRF-OSMB intergenic region;
alpha-beta plait, open-faced beta sandwich,
ferredoxin-like fold; NMR {Escherichia coli} SCOP:
d.64.1.1
Length = 116
Score = 57.5 bits (139), Expect = 3e-11
Identities = 19/93 (20%), Positives = 41/93 (44%), Gaps = 6/93 (6%)
Query: 83 SSKQEEVKRLPGGKIKKKERQEVVIEKVVRNKR-KCITIVKGLDLFGVKLSDASKKLGKK 141
S++ + ++ K V I++ ++ K + ++ G+DL +L+ + +L KK
Sbjct: 11 STETGRIDEPKAAPVRPKGDGVVRIQRQTSGRKGKGVCLITGVDLDDAELTKLAAELKKK 70
Query: 142 FATGASVVKGPTEKEQIDVQGDISYDIVEFITD 174
G +V G I++QGD + +
Sbjct: 71 CGCGGAVKDG-----VIEIQGDKRDLLKSLLEA 98
>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 = 35.4 bits (81), Expect = 0.011
Identities = 18/111 (16%), Positives = 39/111 (35%), Gaps = 30/111 (27%)
Query: 107 IEKVVRNKRKCITIVKGLDLFGVKLSDASKKLGKKFA--TGASVVKGPTEKEQIDVQGDI 164
I +V N +TI FG + K++ + ++ ++V G + E+I + +
Sbjct: 1661 ILDIVINNPVNLTI-----HFGGE---KGKRIRENYSAMIFETIVDGKLKTEKIFKEINE 1712
Query: 165 SYDIVEF------ITDTW---PAVISLSIFFSFSCVLHKWCIWKTLKEDFV 206
F ++ T PA+ + ++ LK +
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEK-----------AAFEDLKSKGL 1752
>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 = 28.8 bits (63), Expect = 0.74
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 53 EKEA-EKVSGQLQLFGLSSGGA 73
EK+A +K+ L+L+ S A
Sbjct: 18 EKQALKKLQASLKLYADDSAPA 39
Score = 26.5 bits (57), Expect = 4.4
Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 18/41 (43%)
Query: 3 EKPQPVRVLYCSICSLPAEYCEFGPDFEKCKPWLIKNAPEL 43
EK Q ++ L S+ L + D +AP L
Sbjct: 18 EK-QALKKLQASL-KL------YADD----------SAPAL 40
>3l8k_A Dihydrolipoyl dehydrogenase; redox-active center, structural
genomics, PSI-2, protein structure initiative; HET: ADP;
2.50A {Sulfolobus solfataricus}
Length = 466
Score = 28.3 bits (64), Expect = 2.0
Identities = 8/49 (16%), Positives = 14/49 (28%), Gaps = 6/49 (12%)
Query: 118 ITIVKGLDLFGVKLSD------ASKKLGKKFATGASVVKGPTEKEQIDV 160
I++ LD + L D L + V + K+
Sbjct: 198 THIIEMLDRALITLEDQDIVNTLLSILKLNIKFNSPVTEVKKIKDDEYE 246
>3iz5_V 60S ribosomal protein L17 (L22P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_V
Length = 171
Score = 26.9 bits (59), Expect = 2.7
Identities = 5/60 (8%), Positives = 15/60 (25%), Gaps = 2/60 (3%)
Query: 47 LLKEANEKEAEKV--SGQLQLFGLSSGGADGATSGQTSSSKQEEVKRLPGGKIKKKERQE 104
+ ++ + + + G A S ++ + K K +
Sbjct: 42 GKAKRYLEDVIAHKQAIPFRRYCGGVGRTAQAKSRHSNGQGRWPAKSARFILDLLKNAES 101
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component,
SM-like protein,, protein binding; NMR {Drosophila
melanogaster}
Length = 103
Score = 25.5 bits (55), Expect = 7.7
Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 5/67 (7%)
Query: 95 GKIKKKERQEVVIEKVVRN---KRKCITIV--KGLDLFGVKLSDASKKLGKKFATGASVV 149
G IK+ +E+ I + RN RK V K D+ + L + +K+ VV
Sbjct: 28 GLIKQISAEEITIVRAFRNGVPLRKQNAEVVLKCTDIRSIDLIEPAKQDLDGHTAPPPVV 87
Query: 150 KGPTEKE 156
PT +
Sbjct: 88 NKPTPVK 94
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
0.317 0.136 0.407
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,164,171
Number of extensions: 179909
Number of successful extensions: 344
Number of sequences better than 10.0: 1
Number of HSP's gapped: 341
Number of HSP's successfully gapped: 12
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
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: 55 (24.8 bits)