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= 032460
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HR0|W Chain W, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1ZO1|W Chain W, If2, If1, And Trna Fitted To Cryo-Em Data Of E. Coli 70s
Initiation Complex
Length = 71
Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 37/61 (60%), Positives = 50/61 (81%)
Query: 72 EGFITESLPNGMFRVRLDNEDLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIY 131
EG +TE+LPN FRV+LD+ IL YISGK+R ++IR+LPGDRV VE++ YD ++GRI+Y
Sbjct: 10 EGVVTEALPNATFRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTRGRIVY 69
Query: 132 R 132
R
Sbjct: 70 R 70
>pdb|3I4O|A Chain A, Crystal Structure Of Translation Initiation Factor 1 From
Mycobacterium Tuberculosis
pdb|3I4O|B Chain B, Crystal Structure Of Translation Initiation Factor 1 From
Mycobacterium Tuberculosis
Length = 79
Score = 80.1 bits (196), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 36/63 (57%), Positives = 49/63 (77%)
Query: 72 EGFITESLPNGMFRVRLDNEDLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIY 131
EG + E LPN MFR+ L+N +L +ISGK+RQ++IR+LP DRV VE+S YD S+GRI+Y
Sbjct: 17 EGRVVEPLPNAMFRIELENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVY 76
Query: 132 RLR 134
R +
Sbjct: 77 RYK 79
>pdb|1AH9|A Chain A, The Structure Of The Translational Initiation Factor If1
From Escherichia Coli, Nmr, 19 Structures
Length = 71
Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/63 (53%), Positives = 50/63 (79%)
Query: 72 EGFITESLPNGMFRVRLDNEDLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIY 131
+G + E+LPN MFRV L+N ++ +ISGK+R+N+IR+L GD+V VE++ YD SKGRI++
Sbjct: 9 QGTVLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVF 68
Query: 132 RLR 134
R R
Sbjct: 69 RSR 71
>pdb|2K4K|A Chain A, Solution Structure Of Gsp13 From Bacillus Subtilis
Length = 130
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 7/70 (10%)
Query: 70 VHEGFITESLPNGMFRVRLDNEDLILGYISGKIRQNFIRVLP-----GDRVRVEVSRYDT 124
V+ G +T G F V LD E L +IS ++ F++ + GD V+V+V D
Sbjct: 10 VYTGKVTGLQAYGAF-VALDEETQGLVHIS-EVTHGFVKDINEHLSVGDEVQVKVLAVDE 67
Query: 125 SKGRIIYRLR 134
KG+I +R
Sbjct: 68 EKGKISLSIR 77
>pdb|2D1P|C Chain C, Crystal Structure Of Heterohexameric Tusbcd Proteins,
Which Are Crucial For The Trna Modification
pdb|2D1P|F Chain F, Crystal Structure Of Heterohexameric Tusbcd Proteins,
Which Are Crucial For The Trna Modification
pdb|2D1P|I Chain I, Crystal Structure Of Heterohexameric Tusbcd Proteins,
Which Are Crucial For The Trna Modification
Length = 95
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%)
Query: 77 ESLPNGMFRVRLDNEDLILGYISGKIRQNFIRVLPGDRVRVEV 119
ESL N +V NEDLI ++G+I + I + D VR+ V
Sbjct: 45 ESLRNAPIKVYALNEDLIARGLTGQISNDIILIDYTDFVRLTV 87
>pdb|4AL6|A Chain A, Crystal Structure Of The S148acsy4-Crrna Complex
Length = 191
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 85 RVRLDNE---DLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIYRLRNKISSD 140
R+R D E ++ + GK+ Q + GDR+ V D S+ R+ RLR S+D
Sbjct: 12 RLRPDPEFPPAQLMSVLFGKLHQALV-AQGGDRIGVSFPDLDESRSRLGERLRIHASAD 69
>pdb|4AL7|A Chain A, Crystal Structure Of The Csy4-Minimal Crrna Complex
Length = 191
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 85 RVRLDNE---DLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIYRLRNKISSD 140
R+R D E ++ + GK+ Q + GDR+ V D S+ R+ RLR S+D
Sbjct: 12 RLRPDPEFPPAQLMSVLFGKLHQALV-AQGGDRIGVSFPDLDESRSRLGERLRIHASAD 69
>pdb|2XLI|A Chain A, Crystal Structure Of The Csy4-Crrna Complex, Monoclinic
Form
Length = 191
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 85 RVRLDNE---DLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIYRLRNKISSD 140
R+R D E ++ + GK+ Q + GDR+ V D S+ R+ RLR S+D
Sbjct: 12 RLRPDPEFPPAQLMSVLFGKLHQALV-AQGGDRIGVSFPDLDESRSRLGERLRIHASAD 69
>pdb|3ENH|A Chain A, Crystal Structure Of Cgi121BUD32KAE1 COMPLEX
pdb|3ENH|B Chain B, Crystal Structure Of Cgi121BUD32KAE1 COMPLEX
pdb|3EN9|A Chain A, Structure Of The Methanococcus Jannaschii Kae1-Bud32
Fusion Protein
pdb|3EN9|B Chain B, Structure Of The Methanococcus Jannaschii Kae1-Bud32
Fusion Protein
Length = 540
Score = 26.9 bits (58), Expect = 4.0, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 83 MFRVRLDNEDLILGYISGKIRQNFI 107
+F V LDN+ +++ YI+GK+ ++ I
Sbjct: 406 IFDVDLDNKRIMMSYINGKLAKDVI 430
>pdb|2VWB|A Chain A, Structure Of The Archaeal Kae1-Bud32 Fusion Protein
Mj1130: A Model For The Eukaryotic Ekc-Keops Subcomplex
Involved In Transcription And Telomere Homeostasis.
pdb|2VWB|B Chain B, Structure Of The Archaeal Kae1-Bud32 Fusion Protein
Mj1130: A Model For The Eukaryotic Ekc-Keops Subcomplex
Involved In Transcription And Telomere Homeostasis
Length = 535
Score = 26.9 bits (58), Expect = 4.2, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 83 MFRVRLDNEDLILGYISGKIRQNFI 107
+F V LDN+ +++ YI+GK+ ++ I
Sbjct: 401 IFDVDLDNKRIMMSYINGKLAKDVI 425
>pdb|2OQK|A Chain A, Crystal Structure Of Putative Cryptosporidium Parvum
Translation Initiation Factor Eif-1a
Length = 117
Score = 25.8 bits (55), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 73 GFITESLPNGMFRVRLDNEDLILGYISGKIRQNFIRVLPGDRVRVEVSRYDTSKGRIIYR 132
G + L NG + L +I GK R+ + V PGD V V + + SKG II +
Sbjct: 36 GQVQRXLGNGRLDAYCFDGQKRLCHIRGKXRKK-VWVNPGDIVLVSLRDFQDSKGDIILK 94
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
0.321 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,324,057
Number of Sequences: 62578
Number of extensions: 176882
Number of successful extensions: 295
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 287
Number of HSP's gapped (non-prelim): 13
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)