BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy2272
(276 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1D7Q|A Chain A, Human Translation Initiation Factor Eif1a
Length = 143
Score = 146 bits (368), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 70/92 (76%), Positives = 77/92 (83%), Gaps = 1/92 (1%)
Query: 1 MLGNGRLEAMCFDGTKRLCHIRGKLRKKVWINQGDIILIGLRDYQDAKADVILKYTPDEA 60
MLGNGRLEAMCFDG KRLCHIRGKLRKKVWIN DIIL+GLRDYQD KADVILKY DEA
Sbjct: 40 MLGNGRLEAMCFDGVKRLCHIRGKLRKKVWINTSDIILVGLRDYQDNKADVILKYNADEA 99
Query: 61 RNLKTYGEFPETVRINDTVTFVEEGYDEDIEF 92
R+LK YGE PE +IN+T TF G D++I+F
Sbjct: 100 RSLKAYGELPEHAKINETDTF-GPGDDDEIQF 130
>pdb|2OQK|A Chain A, Crystal Structure Of Putative Cryptosporidium Parvum
Translation Initiation Factor Eif-1a
Length = 117
Score = 128 bits (322), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 56/76 (73%), Positives = 66/76 (86%)
Query: 2 LGNGRLEAMCFDGTKRLCHIRGKLRKKVWINQGDIILIGLRDYQDAKADVILKYTPDEAR 61
LGNGRL+A CFDG KRLCHIRGK RKKVW+N GDI+L+ LRD+QD+K D+ILKYTPDEAR
Sbjct: 42 LGNGRLDAYCFDGQKRLCHIRGKXRKKVWVNPGDIVLVSLRDFQDSKGDIILKYTPDEAR 101
Query: 62 NLKTYGEFPETVRIND 77
LK+ GE PET +IN+
Sbjct: 102 ALKSKGEIPETTKINE 117
>pdb|1JT8|A Chain A, Archaeal Initiation Factor-1a, Aif-1a
Length = 102
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 1 MLGNGRLEAMCFDGTKRLCHIRGKLRKKVWINQGDIILIGLRDYQ-DAKADVILKYTPDE 59
MLG R+ C DG RL I G+L+ ++W+ +GD++++ + Q D K D+I +YT +
Sbjct: 29 MLGASRVRVRCLDGKTRLGRIPGRLKNRIWVREGDVVIVKPWEVQGDQKCDIIWRYTKTQ 88
Query: 60 ARNLKTYGEFPE 71
LK G E
Sbjct: 89 VEWLKRKGYLDE 100
>pdb|2DGY|A Chain A, Solution Structure Of The Eukaryotic Initiation Factor
1a In Mgc11102 Protein
Length = 111
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 3 GNGRLEAMCFDGTKRLCHIRGKLRKKVWINQGDIILIG-LRDYQDAKADVILKYTPDEAR 61
GN E G + L + K RK +WI +GD +++ + + + KA++ D R
Sbjct: 26 GNNLHEVETAQGQRFLVSMPSKYRKNIWIKRGDFLIVDPIEEGEKVKAEISFVLCKDHVR 85
Query: 62 NLKTYGEFPET 72
+L+ G +PE
Sbjct: 86 SLQKEGFWPEA 96
>pdb|1NUI|A Chain A, Crystal Structure Of The Primase Fragment Of Bacteriophage
T7 Primase- Helicase Protein
pdb|1NUI|B Chain B, Crystal Structure Of The Primase Fragment Of Bacteriophage
T7 Primase- Helicase Protein
Length = 255
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 4 NGRLEAMCFDG-TKRLCHIRGKLRKKVWINQGDIILIGLRDYQDAKADVILKYTPDEARN 62
NGR A+ G +K C G WI + D ++ + DY+D +++ + D+ +N
Sbjct: 75 NGRYSALTARGISKETCQKAG-----YWIAKVDGVMYQVADYRDQNGNIVSQKVRDKDKN 129
Query: 63 LKTYG 67
KT G
Sbjct: 130 FKTTG 134
>pdb|1Q57|A Chain A, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
pdb|1Q57|B Chain B, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
pdb|1Q57|C Chain C, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
pdb|1Q57|D Chain D, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
pdb|1Q57|E Chain E, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
pdb|1Q57|F Chain F, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
pdb|1Q57|G Chain G, The Crystal Structure Of The Bifunctional
Primase-helicase Of Bacteriophage T7
Length = 503
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 4 NGRLEAMCFDG-TKRLCHIRGKLRKKVWINQGDIILIGLRDYQDAKADVILKYTPDEARN 62
NGR A+ G +K C G WI + D ++ + DY+D +++ + D+ +N
Sbjct: 12 NGRYSALTARGISKETCQKAG-----YWIAKVDGVMYQVADYRDQNGNIVSQKVRDKDKN 66
Query: 63 LKTYG 67
KT G
Sbjct: 67 FKTTG 71
>pdb|3KO1|A Chain A, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|B Chain B, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|C Chain C, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|D Chain D, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|E Chain E, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|F Chain F, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|G Chain G, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|H Chain H, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|I Chain I, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
Length = 553
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 11/69 (15%)
Query: 11 CFDGTKRLCHIRGKLRKKVWINQGDIILIGLRDYQDAKADVILK-YTPDEARNLKTYGEF 69
DGTK G+L KK D++ Y+D +I+ Y E L+T E
Sbjct: 100 TADGTKTAVIFSGELVKKAE----DLL------YKDVHPTIIISGYKKAEEVALQTIQEL 149
Query: 70 PETVRINDT 78
+TV INDT
Sbjct: 150 AQTVSINDT 158
>pdb|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
pdb|1A77|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
Length = 326
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 23 GKLRKKVWINQGDIILIGLRDYQDAKADVILKYTPDEARNLKTYGEFPETVRINDTV 79
G+ + +GD+ + +DY D +L P RNL T E PE + +N+ +
Sbjct: 153 GEAQASYMAKKGDVWAVVSQDY-----DALLYGAPRVVRNLTTTKEMPELIELNEVL 204
>pdb|1ONL|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8 H-Protein
Of The Glycine Cleavage System
pdb|1ONL|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8 H-Protein
Of The Glycine Cleavage System
pdb|1ONL|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8 H-Protein
Of The Glycine Cleavage System
Length = 128
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 31 INQGDIILIGLRDY-QDAKADVILKYTPDEARNLK 64
+ +GD +L+G+ DY QDA DV+ P+ R ++
Sbjct: 17 LPEGDTVLVGITDYAQDALGDVVYVELPEVGRVVE 51
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,632,763
Number of Sequences: 62578
Number of extensions: 370131
Number of successful extensions: 810
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 798
Number of HSP's gapped (non-prelim): 14
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)