RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9631
(90 letters)
>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding
protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*
Length = 397
Score = 64.9 bits (159), Expect = 3e-14
Identities = 30/55 (54%), Positives = 39/55 (70%)
Query: 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGED 56
H VEAQ+Y+LTKEEGGR +P+ ++S TWD+A RII GK++ MPGED
Sbjct: 295 HQKVEAQVYILTKEEGGRHKPFVSHFMPVMFSLTWDMACRIILPPGKELAMPGED 349
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase-RNA complex; HET:
GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A*
3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G*
1efu_B
Length = 1289
Score = 61.5 bits (149), Expect = 5e-13
Identities = 20/55 (36%), Positives = 32/55 (58%)
Query: 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGED 56
H E+++Y+L+K+EGGR P+ + Y +T DV I G +M MPG++
Sbjct: 586 HTKFESEVYILSKDEGGRHTPFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDN 640
>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation
factor, protein synthesis, antibiotic, GTP-binding,
nucleotide-binding; HET: GNP PUL; 1.4A {Thermus
thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB:
2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z*
2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A*
2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...
Length = 405
Score = 58.0 bits (141), Expect = 9e-12
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 8/59 (13%)
Query: 2 HDHVEAQIYLLTKEEGGRTRP----YTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGED 56
H EA +Y+L KEEGGR Y P Y +T DV + G +M MPG++
Sbjct: 313 HTKFEASVYVLKKEEGGRHTGFFSGYRP----QFYFRTTDVTGVVQLPPGVEMVMPGDN 367
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 52.2 bits (126), Expect = 1e-09
Identities = 8/60 (13%), Positives = 17/60 (28%), Gaps = 11/60 (18%)
Query: 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARI----IDMGGKDMFMPGEDG 57
+E + TK+ + H++ R+ +D + PG
Sbjct: 282 DYTLECTVSKFTKKIEPASVL-------HLFVGLQSEPVRVEKILVDGNEVEEAKPGSTC 334
>1wb1_A Translation elongation factor SELB; selenocysteine, protein
synthesis, selenium, ribosome; HET: GDP DXC; 3.0A
{Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*
Length = 482
Score = 40.9 bits (96), Expect = 9e-06
Identities = 9/66 (13%), Positives = 19/66 (28%), Gaps = 15/66 (22%)
Query: 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG-----------GKDM 50
D + A+I + + TP + H+ V A + +
Sbjct: 290 VDKIVAKIKISDIFK----YNLTPKMKVHLNVGMLIVPAVAVPFKKVTFGKTEENIILNE 345
Query: 51 FMPGED 56
+ G +
Sbjct: 346 VISGNE 351
>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase,
EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP:
b.43.3.1 b.44.1.1 c.37.1.8
Length = 408
Score = 33.0 bits (76), Expect = 0.006
Identities = 7/57 (12%), Positives = 13/57 (22%), Gaps = 12/57 (21%)
Query: 2 HDHVEAQIYLLTKEEGGRTRP--------YTPWGQAHVYSKTWDVAARIIDMGGKDM 50
+ + + LL + G + + T A I G
Sbjct: 320 REKITIRANLLDRVVGTKEELKIEPLRTGEVL----MLNIGTATTAGVITSARGDIA 372
>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus
abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A*
1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*
Length = 410
Score = 31.8 bits (73), Expect = 0.017
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 1 MHDHVEAQIYLLTKEEGGRTRP 22
+ D + +++LL + G
Sbjct: 321 VWDSLRLEVHLLERVVGTEQEL 342
>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 = 27.3 bits (60), Expect = 0.80
Identities = 15/84 (17%), Positives = 29/84 (34%), Gaps = 31/84 (36%)
Query: 8 QIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDPLRGPM 66
+ Y+ + R P+ + ++ + A+++ + GG+ GN D
Sbjct: 124 KNYITARIMAKR--PFDKKSNSALFRAVGEGNAQLVAIFGGQ--------GNTD------ 167
Query: 67 RPHHLLLQSCPHKAEYIEELGSLY 90
+Y EEL LY
Sbjct: 168 --------------DYFEELRDLY 177
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 269
Score = 26.3 bits (59), Expect = 1.4
Identities = 7/12 (58%), Positives = 7/12 (58%)
Query: 17 GGRTRPYTPWGQ 28
GR P TPWG
Sbjct: 237 IGRKSPTTPWGY 248
>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger,
initiate translation, tRNA binding, mRNA bindin binding;
HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB:
3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A*
3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*
Length = 403
Score = 25.7 bits (57), Expect = 2.0
Identities = 5/57 (8%), Positives = 17/57 (29%), Gaps = 12/57 (21%)
Query: 2 HDHVEAQIYLLTK----EEGGRTRP----YTPWGQAHVYSKTWDVAARIIDMGGKDM 50
++ + LL + +E + P T + + + + ++
Sbjct: 314 LWNIRIKYNLLERVVGAKEMLKVDPIRAKETL----MLSVGSSTTLGIVTSVKKDEI 366
>2gwn_A Dihydroorotase; zinc-binding prote structural genomics, PSI,
protein structure initiative, MID center for structural
genomics, MCSG; HET: KCX GOL; 1.85A {Porphyromonas
gingivalis}
Length = 452
Score = 24.1 bits (53), Expect = 7.6
Identities = 5/23 (21%), Positives = 6/23 (26%), Gaps = 5/23 (21%)
Query: 68 PHHLLLQSCPHKAEYIEELGSLY 90
HHL LG+
Sbjct: 269 VHHLWFS-----DTDYGRLGNRI 286
>1i9z_A Synaptojanin, phosphatidylinositol phosphate phosphatase;
spsynaptojanin, IPP5C, IP3, IP2,, hydrolase; HET: 2IP;
1.80A {Schizosaccharomyces pombe} SCOP: d.151.1.2 PDB:
1i9y_A*
Length = 347
Score = 24.1 bits (52), Expect = 9.2
Identities = 7/92 (7%), Positives = 28/92 (30%), Gaps = 13/92 (14%)
Query: 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPD 60
+H++V ++ E ++ ++ ++++ ++ P D
Sbjct: 4 IHEYVNHELRKRENE-------FSEHKNVKIFVASYNLNGCSATTKLENWLFPENTPLAD 56
Query: 61 PLRG------PMRPHHLLLQSCPHKAEYIEEL 86
+ P ++ + E+ +
Sbjct: 57 IYVVGFQEIVQLTPQQVISADPAKRREWESCV 88
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
0.319 0.139 0.455
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,555,230
Number of extensions: 82985
Number of successful extensions: 220
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 18
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
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 (21.7 bits)
S2: 51 (23.4 bits)