RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2816
(83 letters)
>4fvg_A Stomatin; mixed alpha-beta fold, membrane scaffold, membrane
protein; 1.80A {Mus musculus} PDB: 4fvj_A 4fvf_A
Length = 133
Score = 91.8 bits (229), Expect = 5e-26
Identities = 24/70 (34%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 14 ILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEF 73
+ P D V ++ I+ D+P Q +T D+VT+S+DGV+Y ++ + LA + + +
Sbjct: 3 LGSPSTDSAAKV-DMRTISFDIPPQEVLTKDSVTISVDGVVYYRVQNATLAVANITNADS 61
Query: 74 AITQLAQTTM 83
A LAQTT+
Sbjct: 62 ATRLLAQTTL 71
>2rpb_A Hypothetical membrane protein; SPFH domain; NMR {Pyrococcus
horikoshii}
Length = 113
Score = 90.3 bits (225), Expect = 1e-25
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 27 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQLAQTTM 83
L+E IDVP Q I DNV +++D V+Y ++ DP A Y V D AI +LAQT +
Sbjct: 6 DLREHVIDVPPQEVICKDNVVVTVDAVVYYQVIDPVKAVYNVSDFLMAIVKLAQTNL 62
>3bk6_A PH stomatin; archaea, trimer, coiled- coil, flotillin, SPFH,
membrane fusion, trafficking, transmembrane, membrane
protein; 3.20A {Pyrococcus horikoshii}
Length = 188
Score = 86.1 bits (214), Expect = 4e-23
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 18 IIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPYLASYGVEDPEFAITQ 77
I +K V L+ +DVP Q IT DNV + ++ V+Y ++ DP A V++ A +Q
Sbjct: 2 IFEKAVIV-DLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQ 60
Query: 78 LAQTTM 83
++QTT+
Sbjct: 61 ISQTTL 66
>1win_A Flotillin 2; BAND 7 domain, structural genomics, riken structural
genomics/proteomics initiative, RSGI, cell adhesion;
NMR {Mus musculus} SCOP: d.43.2.1
Length = 143
Score = 50.6 bits (121), Expect = 8e-10
Identities = 12/66 (18%), Positives = 26/66 (39%), Gaps = 9/66 (13%)
Query: 27 SLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDPY---------LASYGVEDPEFAITQ 77
SL+ + + + T++ V L++ GV +KI V+D + + Q
Sbjct: 11 SLEIMTLQPRCEDVETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDIKNVVLQ 70
Query: 78 LAQTTM 83
+ +
Sbjct: 71 TLEGHL 76
>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 = 0.013
Identities = 12/84 (14%), Positives = 28/84 (33%), Gaps = 24/84 (28%)
Query: 3 KYHRILEPGLNILIPIIDKIKYVQSLKEIAI---DVPQQSAITSDNVTLSIDGVLYLKIN 59
K I+E LN+L P + + +++ I + LS+ + +
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMF----DRLSVFPPSAH----IPTI--LLSL-----IWFD 398
Query: 60 DPYLASYGVEDPEFAITQLAQTTM 83
D + +L + ++
Sbjct: 399 VIK------SDVMVVVNKLHKYSL 416
>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 = 31.9 bits (72), Expect = 0.014
Identities = 14/82 (17%), Positives = 29/82 (35%), Gaps = 18/82 (21%)
Query: 4 YHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKI----- 58
YH ++ LI ++L E+ + + ++ + +L+
Sbjct: 180 YHVLVGD----LIKFSA-----ETLSELIRTTLDAEKVFTQ----GLNILEWLENPSNTP 226
Query: 59 NDPYLASYGVEDPEFAITQLAQ 80
+ YL S + P + QLA
Sbjct: 227 DKDYLLSIPISCPLIGVIQLAH 248
Score = 26.6 bits (58), Expect = 1.2
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 15/48 (31%)
Query: 11 GLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGV---LY 55
L+ + +++ IK +Q + I + +LS++ V L+
Sbjct: 1861 ALDTVTNVLNFIK-LQKIDIIEL-----------QKSLSLEEVEGHLF 1896
>3mn8_A LP15968P; catalytic domain of alpha/beta-hydrolase fold,
C-terminal, A transthyretin-like domain, hydrolase; HET:
NAG GEM; 2.70A {Drosophila melanogaster}
Length = 435
Score = 28.0 bits (62), Expect = 0.29
Identities = 13/65 (20%), Positives = 21/65 (32%), Gaps = 2/65 (3%)
Query: 2 GKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLSIDGVLYLKINDP 61
G+Y R+L PGL + Y S + + L+ + I+
Sbjct: 372 GEYWRLLTPGLYSV--HASAFGYQTSAPQQVRVTNDNQEALRLDFKLAPVETNFDGISSF 429
Query: 62 YLASY 66
Y Y
Sbjct: 430 YSPYY 434
>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein
biosynthesis, nucleotide-binding, phosphorylation, RNA-
binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces
cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A
Length = 986
Score = 25.8 bits (56), Expect = 1.7
Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 11/74 (14%)
Query: 5 HRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDN----VTLSIDGVLYLK--I 58
+ L+I++P++ + L E + ++SA+ DN V +L +
Sbjct: 242 AEVTPATLSIMVPLLSR-----GLNERETGIKRKSAVIIDNMCKLVEDPQVIAPFLGKLL 296
Query: 59 NDPYLASYGVEDPE 72
+ DPE
Sbjct: 297 PGLKSNFATIADPE 310
>1h8l_A Carboxypeptidase GP180 residues 503-882; hydrolase, zinc-dependent
protease; HET: NAG BMA NDG GEM; 2.6A {Lophonetta
specularioides} SCOP: b.3.2.1 c.56.5.1 PDB: 1qmu_A*
Length = 380
Score = 24.4 bits (53), Expect = 4.8
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 5/48 (10%)
Query: 2 GKYHRILEPGLNILIPIIDKIKYVQSLKEIAIDVPQQSAITSDNVTLS 49
G Y R+L G + Y K ++V + + N TLS
Sbjct: 336 GDYWRLLVQGTYKV--TASARGYDPVTKT--VEVDSKGGVQV-NFTLS 378
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
0.318 0.138 0.382
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,271,118
Number of extensions: 63464
Number of successful extensions: 107
Number of sequences better than 10.0: 1
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 11
Length of query: 83
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 32
Effective length of database: 5,277,822
Effective search space: 168890304
Effective search space used: 168890304
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 (21.7 bits)
S2: 51 (23.3 bits)