RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8925
(80 letters)
>3hxi_A Eukaryotic translation initiation 4E; protein-mRNA CAP complex,
acetylation, phosphoprotein, protein synthesis
inhibitor; HET: GTG; 1.80A {Schistosoma mansoni} PDB:
3hxg_A*
Length = 189
Score = 56.2 bits (135), Expect = 1e-11
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 41 IKHPLHNKWTLWYFENDKNKGWEENQREITSFSTVEDFWW 80
HPL + W+ + F+ K W+E ++ +FST+EDFW
Sbjct: 8 FPHPLQDSWSYYLFQFRKALDWDECLEKVATFSTIEDFWS 47
>3m94_A Translation initiation factor 4E; EIF4E, berkeley structural
genomics center, BSGC; HET: M7M; 2.05A {Ascaris suum}
PDB: 3m93_A*
Length = 189
Score = 56.3 bits (135), Expect = 1e-11
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 41 IKHPLHNKWTLWYFENDKNKGWEENQREITSFSTVEDFW 79
++HPL W LWY + D++K WE+ +++ F TVEDFW
Sbjct: 1 MRHPLQCHWALWYLKADRSKDWEDCLKQVAVFDTVEDFW 39
>1l8b_A Eukaryotic translation initiation factor 4E; eukaryotic
initiation factor 4E, EIF4E, CAP, 7-METHYLGPPPG, RNA
binding protein; HET: MGP; 1.80A {Mus musculus} SCOP:
d.86.1.1 PDB: 1ej4_A* 1ejh_A* 1ej1_A* 1wkw_A* 3am7_A*
Length = 190
Score = 55.1 bits (132), Expect = 3e-11
Identities = 26/42 (61%), Positives = 32/42 (76%)
Query: 38 ELMIKHPLHNKWTLWYFENDKNKGWEENQREITSFSTVEDFW 79
E IKHPL N+W LW+F+NDK+K W+ N R I+ F TVEDFW
Sbjct: 5 EHYIKHPLQNRWALWFFKNDKSKTWQANLRLISKFDTVEDFW 46
>1ap8_A Translation initiation factor EIF4E; RNA CAP; HET: M7G; NMR
{Saccharomyces cerevisiae} SCOP: d.86.1.1 PDB: 1rf8_A*
Length = 213
Score = 54.4 bits (130), Expect = 7e-11
Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 2/68 (2%)
Query: 14 NKEKEQQPQENTTTTAVTTPEVESELMIKHPLHNKWTLWYFEN--DKNKGWEENQREITS 71
K +E ++TT T T + +KHPL+ KWTLWY + DK++ W + R +TS
Sbjct: 8 KKFEENVSVDDTTATPKTVLSDSAHFDVKHPLNTKWTLWYTKPAVDKSESWSDLLRPVTS 67
Query: 72 FSTVEDFW 79
F TVE+FW
Sbjct: 68 FQTVEEFW 75
>1ipb_A Eukaryotic translation initiation factor 4E; protein
biosynthesis, RNA binding protein; HET: GTA; 2.00A
{Homo sapiens} SCOP: d.86.1.1 PDB: 1ipc_A* 2gpq_A
2v8w_A* 2v8x_A* 2v8y_A* 2w97_A* 3smu_A 3tf2_A 3u7x_A
4dt6_A* 4dum_A* 2w97_B*
Length = 217
Score = 54.1 bits (129), Expect = 1e-10
Identities = 28/66 (42%), Positives = 34/66 (51%)
Query: 14 NKEKEQQPQENTTTTAVTTPEVESELMIKHPLHNKWTLWYFENDKNKGWEENQREITSFS 73
P T E IKHPL N+W LW+F+NDK+K W+ N R I+ F
Sbjct: 8 TTPTPNPPTTEEEKTESNQEVANPEHYIKHPLQNRWALWFFKNDKSKTWQANLRLISKFD 67
Query: 74 TVEDFW 79
TVEDFW
Sbjct: 68 TVEDFW 73
>2idr_A Eukaryotic translation initiation factor 4E-1; eukaryotic
initiation factor 4E, EIF4E, translation regulator;
1.85A {Triticum aestivum} PDB: 2idv_A* 2wmc_A*
Length = 177
Score = 49.9 bits (119), Expect = 2e-09
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 43 HPLHNKWTLWYF---ENDKNKGWEENQREITSFSTVEDFWW 80
HPL N WT W+ + W I +FSTVEDFW
Sbjct: 2 HPLENAWTFWFDNPQGKSRQVAWGSTIHPIHTFSTVEDFWG 42
>2jgb_A Eukaryotic translation initiation factor 4E type 2;
phosphorylation, 4EHP, EIF4E, RNA- binding,
acetylation, CAP-binding; HET: MGT; 1.7A {Homo sapiens}
PDB: 2jgc_A
Length = 195
Score = 47.4 bits (112), Expect = 3e-08
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 42 KHPLHNKWTLWYFEND-----KNKGWEENQREITSFSTVEDFWW 80
+HPL +T WY ++ +E+N ++I +F++VE FW
Sbjct: 14 EHPLQYNYTFWYSRRTPGRPTSSQSYEQNIKQIGTFASVEQFWR 57
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 25.7 bits (56), Expect = 1.6
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 31 TTPEVESELMIKHPLHNKW 49
TPE ++E+ HP +W
Sbjct: 293 YTPETQTEVYAYHPKLKEW 311
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 25.7 bits (56), Expect = 1.7
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 31 TTPEVESELMIKHPLHNKW 49
TPE ++E+ HP +W
Sbjct: 293 YTPETQTEVYAYHPKLKEW 311
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 25.3 bits (55), Expect = 2.6
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 31 TTPEVESELMIKHPLHNKW 49
TPE ++E+ HP +W
Sbjct: 293 YTPETQTEVYAYHPKLKEW 311
>3mm5_A Sulfite reductase, dissimilatory-type subunit ALP;
alpha-beta-protein, oxidoreductase; HET: SRM; 1.80A
{Archaeoglobus fulgidus} PDB: 3mm6_A* 3mm7_A* 3mm8_A*
3mm9_A* 3mma_A* 3mmb_A* 3mmc_A* 3c7b_A*
Length = 418
Score = 25.2 bits (55), Expect = 2.8
Identities = 6/29 (20%), Positives = 14/29 (48%)
Query: 40 MIKHPLHNKWTLWYFENDKNKGWEENQRE 68
M+K P +N + + + K + E ++
Sbjct: 386 MVKAPRNNPFMFFEKDELKPSAYTEELKK 414
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 24.9 bits (54), Expect = 3.1
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 31 TTPEVESELMIKHPLHNKW 49
TPE ++E+ HP +W
Sbjct: 293 YTPETQTEVYAYHPKLKEW 311
>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus
thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A*
1set_A* 1sry_A
Length = 421
Score = 23.6 bits (52), Expect = 8.5
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 67 REITSFSTVEDF 78
RE S S + D+
Sbjct: 344 RETHSCSALLDW 355
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
0.307 0.122 0.381
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,074,531
Number of extensions: 43544
Number of successful extensions: 116
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 16
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 51 (23.6 bits)