RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2429
(108 letters)
>1f60_B Elongation factor EEF1BA; protein-protein complex, translation;
1.67A {Saccharomyces cerevisiae} SCOP: d.58.12.1 PDB:
1g7c_B* 2b7c_B 2b7b_B 1ije_B* 1ijf_B*
Length = 94
Score = 122 bits (308), Expect = 3e-38
Identities = 45/81 (55%), Positives = 62/81 (76%)
Query: 18 PALIAKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVV 77
AKS + LDVKPW D+T+++EM V+AI+M+GL WGA + P+ +GI KLQI+CVV
Sbjct: 3 AKPAAKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVV 62
Query: 78 EDDLVSVDALQESIQDIEDYV 98
EDD VS+D LQ+SI++ ED+V
Sbjct: 63 EDDKVSLDDLQQSIEEDEDHV 83
>1b64_A Elongation factor 1-beta; guanine nucleotide exchange factor,
G-protein, translation elongation; NMR {Homo sapiens}
SCOP: d.58.12.1
Length = 91
Score = 120 bits (303), Expect = 2e-37
Identities = 51/79 (64%), Positives = 63/79 (79%)
Query: 20 LIAKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVED 79
L+AKS+I+LDVKPW D+TDM ++E+ VR+IQ DGL+WG+SKL P+ YGI KLQI CVVED
Sbjct: 2 LVAKSSILLDVKPWDDETDMAKLEECVRSIQADGLVWGSSKLVPVGYGIKKLQIQCVVED 61
Query: 80 DLVSVDALQESIQDIEDYV 98
D V D L+E I EDYV
Sbjct: 62 DKVGTDMLEEQITAFEDYV 80
>1gh8_A Translation elongation factor 1BETA; alpha-beta sandwich, gene
regulation, structural genomics, PSI; NMR
{Methanothermobacterthermautotrophicus} SCOP: d.58.12.1
Length = 89
Score = 92.0 bits (229), Expect = 3e-26
Identities = 18/75 (24%), Positives = 34/75 (45%)
Query: 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDL 81
+ V P D D++ ++K+++ +G P+A+G+ L + VV D
Sbjct: 2 GDVVATIKVMPESPDVDLEALKKEIQERIPEGTELHKIDEEPIAFGLVALNVMVVVGDAE 61
Query: 82 VSVDALQESIQDIED 96
+A +ES+ IE
Sbjct: 62 GGTEAAEESLSGIEG 76
>2yy3_A Elongation factor 1-beta; structural genomics, NPPSFA, national
Pro protein structural and functional analyses; 2.50A
{Pyrococcus horikoshii}
Length = 91
Score = 69.0 bits (169), Expect = 4e-17
Identities = 14/72 (19%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 26 IILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDL-VSV 84
++ V P D ++ E+E++++ + + + P+A+G+ L+ + D+ S
Sbjct: 8 GVIRVMPTDPDVNLDELEEKLKKVIPEKYGLAKVEREPIAFGLVALKFYVLGRDEEGYSF 67
Query: 85 DALQESIQDIED 96
D + E +++E+
Sbjct: 68 DEVAEKFEEVEN 79
>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 = 26.9 bits (59), Expect = 1.5
Identities = 8/24 (33%), Positives = 11/24 (45%), Gaps = 6/24 (25%)
Query: 81 LVSV-DALQESIQDIEDYVSLVFL 103
L S+ D + IE V +VF
Sbjct: 1770 LASLADVM-----SIESLVEVVFY 1788
>1x3a_A Synapse associated protein 1; BSD domain, homolog of the
drosophila SAP47, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: a.240.1.1
Length = 100
Score = 26.1 bits (57), Expect = 1.6
Identities = 4/21 (19%), Positives = 10/21 (47%)
Query: 32 PWGDDTDMKEMEKQVRAIQMD 52
D + +++Q+ A+ D
Sbjct: 4 GSSGTNDEETIQQQILALSAD 24
>1e6u_A GDP-fucose synthetase; epimerase/reductase, SDR, RED; HET: NAP;
1.45A {Escherichia coli} SCOP: c.2.1.2 PDB: 1e7q_A*
1bsv_A* 1fxs_A* 1gfs_A 1e7s_A* 1bws_A* 1e7r_A*
Length = 321
Score = 26.8 bits (60), Expect = 1.7
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 5/34 (14%)
Query: 14 SHVEPALI-----AKSNIILDVKPWGDDTDMKEM 42
SHV PAL+ A + DV WG T M+E
Sbjct: 178 SHVIPALLRRFHEATAQKAPDVVVWGSGTPMREF 211
>3hef_A Gene 1 protein; bacteriophage SF6, terminase small subunit GP1, GP1
octameric assembly, GP1 channel, DNA recognition, DNA
packaging; 1.65A {Enterobacteria phage SF6}
Length = 143
Score = 26.2 bits (57), Expect = 1.9
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 35 DDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYG 67
D+ E +++D W +++ P YG
Sbjct: 83 DNAIPDAAEVAKARLRVDTRKWALARMNPRKYG 115
>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 = 26.0 bits (56), Expect = 3.7
Identities = 13/72 (18%), Positives = 20/72 (27%), Gaps = 22/72 (30%)
Query: 58 ASKLAPLAYGINKLQISCVVE---DDL--------VSVDALQESIQ-DIED--------- 96
L N ++S + E D L V+ D L I+ +
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374
Query: 97 YVSL-VFLKCVP 107
+ L VF
Sbjct: 375 FDRLSVFPPSAH 386
>1r71_A Transcriptional repressor protein KORB; INCP, plasmid
partitioning, protein-DNA complex, heilx-turn- helix
motif, transcription factor; HET: BRU; 2.20A
{Escherichia coli} SCOP: a.4.14.1
Length = 178
Score = 25.2 bits (55), Expect = 4.2
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 6/37 (16%)
Query: 56 WGASKLAPLAYGINKLQISCVVEDDLVSVDALQESIQ 92
+ SK A I +++D D + E++Q
Sbjct: 2 YRGSKWAGKK------SIPAFIDNDYNEADQVIENLQ 32
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 0.136 0.401
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,565,338
Number of extensions: 77611
Number of successful extensions: 132
Number of sequences better than 10.0: 1
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 14
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
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 (24.0 bits)