RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13768
(175 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 = 31.7 bits (71), Expect = 0.11
Identities = 28/179 (15%), Positives = 56/179 (31%), Gaps = 55/179 (30%)
Query: 8 DVKPDKKTKKT--KHCTYSNQIL---QDTSYSNQLGVLLSRGLLKVKRDSTLTHLRIIVN 62
+V+ + K C +IL + ++ L + + TLT
Sbjct: 252 NVQ-NAKAWNAFNLSC----KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP------ 300
Query: 63 IFVALMLGVLFQNSGEYASSVLINY-NLLFSILIHHVMTSMMLNILTFPMEMSI---LIK 118
+ S+L+ Y + L V+T T P +SI I+
Sbjct: 301 ---------------DEVKSLLLKYLDCRPQDLPREVLT-------TNPRRLSIIAESIR 338
Query: 119 EHFNRWYSLKAYYVSVNLLDIPVADCGPMLYLEAHFNRWYSLKAYYVSVNLL----DIP 173
+ W + K +V+ + L + + LE + + +++ IP
Sbjct: 339 DGLATWDNWK--HVNCDKLTTIIESS--LNVLEP-----AEYRKMFDRLSVFPPSAHIP 388
Score = 28.7 bits (63), Expect = 1.1
Identities = 26/173 (15%), Positives = 57/173 (32%), Gaps = 17/173 (9%)
Query: 1 MVEQAQNDVKPDKKTKKTKHCTYSNQILQDTSYSNQLGVLLSRGLLKVKRDSTLTHLRII 60
++ + + + + +++ D + V SR +K L LR
Sbjct: 94 LMSPIKTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNV--SRLQPYLKLRQALLELRPA 150
Query: 61 VNIFVALMLGVLFQNSGEYASSVLINYNLLFSILIHHVMTSMM--LNILTFPMEMSILIK 118
N+ + +LG SG+ + + ++ S + M + LN+ ++L
Sbjct: 151 KNVLIDGVLG-----SGK---TWVAL-DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEM 201
Query: 119 EHFNRWYSLKAYYVSVNLLDIPVADCGPMLYLEAHFNRWYSLKAYYVSVNLLD 171
Y + + S D + ++A R K Y + +L
Sbjct: 202 LQ-KLLYQIDPNWTS--RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
>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 = 29.9 bits (66), Expect = 0.23
Identities = 8/27 (29%), Positives = 10/27 (37%), Gaps = 10/27 (37%)
Query: 126 SLKAYYVSVNLLDIPVADCGPMLYLEA 152
SLK Y D P L ++A
Sbjct: 28 SLKLY--------AD--DSAPALAIKA 44
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein,
zinc, zinc-finger, structural genomics, PSI-2; NMR
{Thermoplasma acidophilum} SCOP: g.41.8.8
Length = 55
Score = 28.3 bits (63), Expect = 0.30
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 144 CGPMLYLEAHFNRWYSLKAYY 164
CGP ++L H +R+ + Y
Sbjct: 24 CGPGVFLAEHADRYSCGRCGY 44
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo
sapiens}
Length = 80
Score = 27.7 bits (61), Expect = 0.69
Identities = 9/43 (20%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 116 LIKEHFNRW--YSLKAYYVSVNLLDIPVADCGPMLYLEAHFNR 156
+ +E +NR+ Y + + + + P CG L E +
Sbjct: 3 MGEEQYNRYQQYGAEECVLQMGGVLCPRPGCGAGLLPEPDQRK 45
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.1 bits (65), Expect = 0.81
Identities = 8/18 (44%), Positives = 10/18 (55%), Gaps = 6/18 (33%)
Query: 148 LY------LEAHFNRWYS 159
+Y LE FNRW+S
Sbjct: 639 MYSESKLSLETLFNRWHS 656
>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 = 28.5 bits (63), Expect = 1.3
Identities = 18/102 (17%), Positives = 36/102 (35%), Gaps = 33/102 (32%)
Query: 1 MVEQAQNDVKPDKK------TKKTKHCTYSNQ--ILQDTSYSNQ--LGVLLSRGLLKVKR 50
M+ + D K + + + T+ ++ +L T ++ Q L L+ + + +
Sbjct: 1691 MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT-QPAL-TLMEKAAFEDLK 1748
Query: 51 DSTLTHLRIIVNIFVA---LMLGVLFQNSGEYA-----SSVL 84
L I + A L GEYA + V+
Sbjct: 1749 SKGL----IPADATFAGHSL---------GEYAALASLADVM 1777
Score = 26.9 bits (59), Expect = 4.3
Identities = 13/94 (13%), Positives = 28/94 (29%), Gaps = 17/94 (18%)
Query: 64 FVALMLGVLFQNSGEYAS--SVLINY---NLLFSILIHHVMTSMMLNILTFPMEMSILIK 118
+V+ + V G++ ++ + L IH + ++ T ++ LIK
Sbjct: 67 YVSSL--VEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIK 124
Query: 119 EHFNRWYSLKAYYVSVNLLDIPVADCGPMLYLEA 152
Y + + P A
Sbjct: 125 ----------NYITARIMAKRPFDKKSNSALFRA 148
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 27.8 bits (61), Expect = 1.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 143 DCGPMLYLEAHFNRWYSLKAYYV 165
CGP +++ H++R Y K +
Sbjct: 118 KCGPGIFMAKHYDRHYCGKCHLT 140
>2fmm_E Protein EMSY; ENT domain, chromo shadow domain, EMSY protein,
heterochroma protein 1, transcription; 1.80A {Homo
sapiens} SCOP: a.283.1.1
Length = 133
Score = 26.6 bits (58), Expect = 3.0
Identities = 9/45 (20%), Positives = 21/45 (46%)
Query: 19 KHCTYSNQILQDTSYSNQLGVLLSRGLLKVKRDSTLTHLRIIVNI 63
C + L+ +Y+ + L ++G L ++ L L +++I
Sbjct: 8 DECKRILRKLELEAYAGVISALRAQGDLTKEKKDLLGELSKVLSI 52
>3l3f_X Protein DOA1, DOA1/UFD3; armadillo-like repeat structure, nucleus,
UBL conjugation PA protein binding; 1.90A {Saccharomyces
cerevisiae}
Length = 362
Score = 27.2 bits (59), Expect = 3.0
Identities = 20/93 (21%), Positives = 37/93 (39%)
Query: 27 ILQDTSYSNQLGVLLSRGLLKVKRDSTLTHLRIIVNIFVALMLGVLFQNSGEYASSVLIN 86
I++ YS+ + + GL T+ +RI+VN F GV S + S+
Sbjct: 190 IVKKLPYSSDIKDYIEEGLGNKNITLTMLTVRILVNCFNNENWGVKLLESNQVYKSIFET 249
Query: 87 YNLLFSILIHHVMTSMMLNILTFPMEMSILIKE 119
+ FS ++ + + T S L+ +
Sbjct: 250 IDTEFSQASAKQSQNLAIAVSTLIFNYSALVTK 282
>1k0w_A L-ribulose 5 phosphate 4-epimerase; aldolase, isomerase; 2.10A
{Escherichia coli} SCOP: c.74.1.1 PDB: 1jdi_A
Length = 231
Score = 27.0 bits (60), Expect = 3.4
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 99 MTSMMLNILTFPMEMSILIKEHFNRWYSLKAYY 131
+ L M+ + L+ +H+ R + KAYY
Sbjct: 198 IFCRQLAPQLPDMQQT-LLNKHYLRKHGAKAYY 229
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G*
2noq_F 1s1h_G 3iz6_F
Length = 225
Score = 25.5 bits (56), Expect = 8.6
Identities = 1/19 (5%), Positives = 3/19 (15%)
Query: 140 PVADCGPMLYLEAHFNRWY 158
V + +
Sbjct: 122 NVLTDQNPIQVVVDAITNT 140
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 0.137 0.401
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,544,133
Number of extensions: 137256
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 229
Number of HSP's successfully gapped: 14
Length of query: 175
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 88
Effective length of database: 4,272,666
Effective search space: 375994608
Effective search space used: 375994608
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 (21.6 bits)
S2: 54 (24.8 bits)