RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13230
(132 letters)
>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 = 36.0 bits (82), Expect = 0.002
Identities = 31/156 (19%), Positives = 53/156 (33%), Gaps = 47/156 (30%)
Query: 11 VSSLSFSRVPESPYKNEMLGLNLLY--LLSQ--NRVAEFHMELERIQYEDMIFLA----- 61
+S + S + + G L+ LLS+ V +F E+ RI Y+ FL
Sbjct: 46 LSKEEIDHIIMSK--DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK---FLMSPIKT 100
Query: 62 KDGVPSPRYNAFMETLIDTTRNEIAS------CIEKAYTVISVGDTAQKL--------HI 107
+ PS ++E D N+ + Y + +L
Sbjct: 101 EQRQPSMMTRMYIEQR-DRLYNDNQVFAKYNVSRLQPYLKLR--QALLELRPAKNVLID- 156
Query: 108 GSEKQMVEFGK-----------KVKNIVYFYIFYIN 132
G ++ GK KV+ + F IF++N
Sbjct: 157 G----VLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
>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 = 0.37
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 11/33 (33%)
Query: 48 ELERIQ-----YEDMIFLAKDGVPSPRYNAFME 75
L+++Q Y A D P+ A ME
Sbjct: 21 ALKKLQASLKLY------ADDSAPALAIKATME 47
>1wui_S Periplasmic [NIFE] hydrogenase small subunit; high resolution
[NIFE]hydrogenase, oxidoreductase, NI-A state, unready
state; HET: NFC; 1.04A {Desulfovibrio vulgaris str}
SCOP: e.19.1.1 PDB: 1h2r_S 1ubj_S 1ubh_S 1ubl_S 1ubm_S
1ubo_S 1ubr_S 1ubt_S 1ubu_S 1wuh_S* 1ubk_S* 1wuj_S
1wuk_S 1wul_S 1e3d_A*
Length = 267
Score = 27.3 bits (60), Expect = 1.7
Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 5/95 (5%)
Query: 13 SLSFSRVPESPYKNEMLG-LNLLY----LLSQNRVAEFHMELERIQYEDMIFLAKDGVPS 67
S S R E +L L+L Y + + AE +E I + + G+P+
Sbjct: 21 SESVLRAFEPYIDTLILDTLSLDYHETIMAAAGDAAEAALEQAVNSPHGFIAVVEGGIPT 80
Query: 68 PRYNAFMETLIDTTRNEIASCIEKAYTVISVGDTA 102
+ + T + + + KA VI+ G A
Sbjct: 81 AANGIYGKVANHTMLDICSRILPKAQAVIAYGTCA 115
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 27.1 bits (61), Expect = 1.9
Identities = 9/47 (19%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 78 IDTTRNEIASCIEKAYTVISVGDTAQKLHIGSEKQMVEFGKKVKNIV 124
+ + + + + +I V DTA + G E ++E K + +
Sbjct: 166 VGIAKRGVEKFLSEKMEIIIV-DTAGRHGYGEEAALLEEMKNIYEAI 211
>3o94_A Nicotinamidase; hydrolase; 1.60A {Streptococcus pneumoniae} PDB:
3o90_A 3o91_A* 3o92_A* 3o93_A*
Length = 211
Score = 26.9 bits (60), Expect = 2.1
Identities = 6/35 (17%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 43 AEFHMELERIQYEDMIFLAKDGVPS-PRYNAFMET 76
+ +L Y++ ++ Y+AF T
Sbjct: 99 RNLYGDLGIF-YQEHGSDSRVFWMDKRHYSAFSGT 132
>2f5j_A Mortality factor 4-like protein 1; MRG fold, mainly A-helix, gene
regulation; 2.20A {Homo sapiens} PDB: 2aql_A 2lkm_B
Length = 181
Score = 25.7 bits (56), Expect = 4.8
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 12/49 (24%)
Query: 24 YKNEMLGLNLLYLLSQNRVAEFHMELERIQYEDMIFLAKDGVPSPRYNA 72
Y N MLG LLY + ER QY +++ D S Y A
Sbjct: 74 YFNVMLGTQLLY------------KFERPQYAEILADHPDAPMSQVYGA 110
>2ah6_A BH1595, unknown conserved protein; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI-2; 1.60A {Bacillus halodurans}
Length = 208
Score = 25.7 bits (57), Expect = 4.9
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 15/66 (22%)
Query: 26 NEMLGLNLLYLLSQNRVAEFHMELERIQYEDMIF-----LAKDGVPSPRYN-------AF 73
N +G + L +N A+ EL +IQ+E +F LA V R F
Sbjct: 49 NSFVGS-AITQLDENTFADIRGELFKIQHE--LFDCGGDLAMLKVKEDRPYKAKQEIVDF 105
Query: 74 METLID 79
+E ID
Sbjct: 106 LEQRID 111
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition
particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A
{Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A
Length = 433
Score = 25.2 bits (56), Expect = 7.4
Identities = 10/47 (21%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 78 IDTTRNEIASCIEKAYTVISVGDTAQKLHIGSEKQMVEFGKKVKNIV 124
I+ + + ++ +I V DTA + G E +++E K++ +++
Sbjct: 165 IEIAKKGVDIFVKNKMDIIIV-DTAGRHGYGEETKLLEEMKEMYDVL 210
>1q8y_A SR protein kinase; transferase; HET: ADP ADE; 2.05A {Saccharomyces
cerevisiae} SCOP: d.144.1.7 PDB: 1q8z_A 1q97_A* 1q99_A*
1how_A 2jd5_A
Length = 373
Score = 25.1 bits (55), Expect = 8.3
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 27 EMLGLNLLYLLSQNRVAEFHMELER 51
E+LG NLL L+ + + +
Sbjct: 110 EVLGENLLALIKKYEHRGIPLIYVK 134
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
0.322 0.137 0.383
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,924,924
Number of extensions: 104679
Number of successful extensions: 164
Number of sequences better than 10.0: 1
Number of HSP's gapped: 164
Number of HSP's successfully gapped: 13
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
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 (21.9 bits)
S2: 52 (23.8 bits)