RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2923
(141 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 = 44.8 bits (105), Expect = 2e-06
Identities = 20/138 (14%), Positives = 44/138 (31%), Gaps = 23/138 (16%)
Query: 14 LWATPPVELFLKVYLFNVTNREAFLAGKEKLRVQEVGPYVYREGMAH------VNVSMND 67
L+ V F K +NV+ + +L ++ L V +G+
Sbjct: 119 LYNDNQV--FAK---YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 68 NGTVTATP--IHPLTWVPELSNGKEDDILILPNIALLSFANVM----AKASLLTRMGVNL 121
I W+ L N + ++ LL + + S ++ ++
Sbjct: 174 YKVQCKMDFKIF---WL-NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 122 LIKQTKRKM--ENYSRTL 137
+ + +R + + Y L
Sbjct: 230 IQAELRRLLKSKPYENCL 247
>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 = 30.4 bits (68), Expect = 0.20
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 12/58 (20%)
Query: 70 TVTATPIHP-----LTWVPELSNGKEDDILI-----LPNIALLSFAN--VMAKASLLT 115
T+ A + L W+ SN + D L+ P I ++ A+ V AK T
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
>1dq3_A Endonuclease; PI-PFUI, intein-encoded, hydrolase; 2.10A {Pyrococcus
furiosus} SCOP: b.86.1.2 d.50.3.1 d.95.2.2 d.95.2.2
Length = 454
Score = 27.4 bits (59), Expect = 1.8
Identities = 10/67 (14%), Positives = 23/67 (34%), Gaps = 5/67 (7%)
Query: 13 DLWATPPVELFLKVYLFNVTNREAFLAGKEKLRVQEVGPYVYREGMAHVNVSMNDNGTVT 72
+ W + + V F+ ++ K +V + Y + + + N +
Sbjct: 40 NRWGIDVSNVPIYVKSFDPESKRV-----VKGKVNVIWKYELGKDVTKYEIITNKGTKIL 94
Query: 73 ATPIHPL 79
+P HP
Sbjct: 95 TSPWHPF 101
>2d7n_A Filamin-C; beta-sandwich, immunoglobulin-like fold, filamin
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: b.1.18.10
Length = 93
Score = 26.2 bits (58), Expect = 2.0
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 7/46 (15%)
Query: 29 FNVTNREAFLAGKEKLRVQEVGPYVYREGMAHVNVSMNDNGTVTAT 74
+ F K +L + P A N++ N +GT+T
Sbjct: 13 LVIP----FAVQKGELTGEVRMP---SGKTARPNITDNKDGTITVR 51
>3k8r_A Uncharacterized protein; unknown function, structural genomics,
joint center for STRU genomics, JCSG; 2.75A
{Rhodospirillum rubrum atcc 11170}
Length = 124
Score = 25.7 bits (56), Expect = 3.7
Identities = 11/66 (16%), Positives = 17/66 (25%), Gaps = 8/66 (12%)
Query: 31 VTNREAFLAGKEKLRVQEVGPYV----YREGMAHVNVSMNDNGTVTATPIHPLTWVPELS 86
+T+ A + P Y A V V + + T P L
Sbjct: 5 LTDALIDAALERGRSAHANEPRAAKARYDRSSARVIVDLENGCTFAF----PPRLAQGLE 60
Query: 87 NGKEDD 92
+D
Sbjct: 61 GASDDQ 66
>1wlg_A Flagellar HOOK protein FLGE; EAR-& motif, structural protein; 1.80A
{Salmonella typhimurium} SCOP: b.152.1.1 PDB: 2bgy_A
2bgz_A
Length = 299
Score = 25.3 bits (55), Expect = 7.4
Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 17/60 (28%)
Query: 62 NVSMNDNGTVTATPIHPLTWVPELSNGKEDDILILPNIALLSFANVMAKASLLTRMGVNL 121
+ +N++GTV SN + +L I L +FAN L G N+
Sbjct: 220 SYQINNDGTVVGN----------YSNEQ---EQVLGQIVLANFANNEG----LASQGDNV 262
>4e2u_A PHO RADA intein; HINT-fold, unknown function; 1.58A {Pyrococcus
horikoshii} PDB: 2lqm_A 4e2t_A*
Length = 168
Score = 25.1 bits (54), Expect = 8.0
Identities = 14/84 (16%), Positives = 33/84 (39%), Gaps = 12/84 (14%)
Query: 2 KVKMSEGSESLDLWATPPVELFLKVYLFNVTNREAFLAGKEKLRVQEVGPYVYREGMAH- 60
K G D P++ + VY ++ + +++ Y+YRE +
Sbjct: 31 KYASMNGELPFDNGYAVPLDN-VFVYTLDIASG--------EIKKTRA-SYIYREKVEKL 80
Query: 61 VNVSMNDNGTVTATPIHPLTWVPE 84
+ + ++ ++ TP HP+ +
Sbjct: 81 IEIKLSSGYSLKVTPSHPV-LLFR 103
>2x8n_A CV0863; non-uniform sampling, multidimensional decomposition,
abacus, fragment monte carlo, structural genomics; NMR
{Chromobacterium violaceum atcc 12472}
Length = 111
Score = 24.5 bits (53), Expect = 8.9
Identities = 6/66 (9%), Positives = 16/66 (24%), Gaps = 8/66 (12%)
Query: 31 VTNREAFLAGKEKLRVQEVGPYV----YREGMAHVNVSMNDNGTVTATPIHPLTWVPELS 86
V+ E A +Q + YR + + ++ + +
Sbjct: 5 VSANELEAASSRMEMLQREYSTLRSVQYRSEEGVIVFILANDRELKF----RPDDLQATY 60
Query: 87 NGKEDD 92
+
Sbjct: 61 GATPEQ 66
>2d5w_A Peptide ABC transporter, peptide-binding protein; protein-peptide
complex, peptide binding protein; 1.30A {Thermus
thermophilus}
Length = 603
Score = 25.2 bits (55), Expect = 9.5
Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 55 REGMAHVNVSMNDNGTVTATPIHPLTW 81
REG+ V + V T I P+
Sbjct: 337 REGL--VKAFFDGLQPVAHTWIAPVNP 361
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
0.316 0.132 0.376
Gapped
Lambda K H
0.267 0.0509 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,028,641
Number of extensions: 109373
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: 12
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
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: 52 (24.3 bits)