BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645911|ref|NP_208090.1| translation initiation
factor EF-1 (infA) [Helicobacter pylori 26695]
(72 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1AH9| The Structure Of The Translational Initiation F... 91 3e-20
pdb|1HR0|W Chain W, Crystal Structure Of Initiation Factor ... 82 8e-18
pdb|1ISQ|A Chain A, Pyrococcus Furiosus Pcna Complexed With... 24 3.6
pdb|1H6V|E Chain E, Mammalian Thioredoxin Reductase >gi|158... 23 7.9
pdb|1A5P| C[40,95]a Variant Of Bovine Pancreatic Ribonucl... 23 7.9
>pdb|1AH9| The Structure Of The Translational Initiation Factor If1 From
Escherichia Coli, Nmr, 19 Structures
Length = 71
Score = 90.5 bits (223), Expect = 3e-20
Identities = 43/69 (62%), Positives = 52/69 (75%)
Query: 2 ARDDVIEVDGKVIEALPNATFKVELDNKHVVLCRISGKMRMHYIRIALGDRVKLELTPYS 61
A++D IE+ G V+E LPN F+VEL+N HVV ISGKMR +YIRI GD+V +ELTPY
Sbjct: 1 AKEDNIEMQGTVLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYD 60
Query: 62 LDKGRITFR 70
L KGRI FR
Sbjct: 61 LSKGRIVFR 69
>pdb|1HR0|W Chain W, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
Length = 71
Score = 82.4 bits (202), Expect = 8e-18
Identities = 40/66 (60%), Positives = 49/66 (73%)
Query: 5 DVIEVDGKVIEALPNATFKVELDNKHVVLCRISGKMRMHYIRIALGDRVKLELTPYSLDK 64
D I +G V EALPNATF+V+LD+ +L ISGKMRMHYIRI GDRV +E+TPY +
Sbjct: 5 DTIRTEGVVTEALPNATFRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTR 64
Query: 65 GRITFR 70
GRI +R
Sbjct: 65 GRIVYR 70
>pdb|1ISQ|A Chain A, Pyrococcus Furiosus Pcna Complexed With Rfcl Pip-Box
Peptide
pdb|1GE8|A Chain A, Proliferating Cell Nuclear Antigen (Pcna) Homolog From
Pyrococcus Furiosus
Length = 249
Score = 23.9 bits (50), Expect = 3.6
Identities = 9/34 (26%), Positives = 19/34 (55%)
Query: 36 ISGKMRMHYIRIALGDRVKLELTPYSLDKGRITF 69
+ G + + I G+ + +++ Y D+GR+TF
Sbjct: 208 VKGLGKADEVTIKFGNEMPMQMEYYIRDEGRLTF 241
>pdb|1H6V|E Chain E, Mammalian Thioredoxin Reductase
pdb|1H6V|A Chain A, Mammalian Thioredoxin Reductase
pdb|1H6V|F Chain F, Mammalian Thioredoxin Reductase
pdb|1H6V|B Chain B, Mammalian Thioredoxin Reductase
pdb|1H6V|D Chain D, Mammalian Thioredoxin Reductase
pdb|1H6V|C Chain C, Mammalian Thioredoxin Reductase
Length = 499
Score = 22.7 bits (47), Expect = 7.9
Identities = 11/22 (50%), Positives = 16/22 (72%), Gaps = 2/22 (9%)
Query: 48 ALGDRV--KLELTPYSLDKGRI 67
A+GD + KLELTP ++ GR+
Sbjct: 331 AIGDILEGKLELTPVAIQAGRL 352
>pdb|1A5P| C[40,95]a Variant Of Bovine Pancreatic Ribonuclease A
Length = 124
Score = 22.7 bits (47), Expect = 7.9
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 18 PNATFKVELDNKHVVL-CRISGKMRMHY 44
PNA +K NKH+++ C + + +H+
Sbjct: 93 PNAAYKTTQANKHIIVACEGNPYVPVHF 120
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.325 0.143 0.409
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 398,896
Number of Sequences: 13198
Number of extensions: 13060
Number of successful extensions: 47
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 44
Number of HSP's gapped (non-prelim): 5
length of query: 72
length of database: 2,899,336
effective HSP length: 48
effective length of query: 24
effective length of database: 2,265,832
effective search space: 54379968
effective search space used: 54379968
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.7 bits)