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= 032228
(145 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 = 163 bits (412), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 77/99 (77%), Positives = 85/99 (85%)
Query: 18 EADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGAKRLCHIRGKMHKKVWIGAGDII 77
E + EKREL+FKEDGQEYAQV++MLGNGR EAMC DG KRLCHIRGK+ KKVWI DII
Sbjct: 17 ENESEKRELVFKEDGQEYAQVIKMLGNGRLEAMCFDGVKRLCHIRGKLRKKVWINTSDII 76
Query: 78 LVGLRDYQDDKADVILKYMPDEARLLKAYGELPETTRLN 116
LVGLRDYQD+KADVILKY DEAR LKAYGELPE ++N
Sbjct: 77 LVGLRDYQDNKADVILKYNADEARSLKAYGELPEHAKIN 115
>pdb|2OQK|A Chain A, Crystal Structure Of Putative Cryptosporidium Parvum
Translation Initiation Factor Eif-1a
Length = 117
Score = 147 bits (370), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 66/99 (66%), Positives = 81/99 (81%)
Query: 18 EADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGAKRLCHIRGKMHKKVWIGAGDII 77
+++ +KREL+FKE+GQEY QV R LGNGR +A C DG KRLCHIRGK KKVW+ GDI+
Sbjct: 18 DSEGDKRELVFKEEGQEYGQVQRXLGNGRLDAYCFDGQKRLCHIRGKXRKKVWVNPGDIV 77
Query: 78 LVGLRDYQDDKADVILKYMPDEARLLKAYGELPETTRLN 116
LV LRD+QD K D+ILKY PDEAR LK+ GE+PETT++N
Sbjct: 78 LVSLRDFQDSKGDIILKYTPDEARALKSKGEIPETTKIN 116
>pdb|1JT8|A Chain A, Archaeal Initiation Factor-1a, Aif-1a
Length = 102
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 45/84 (53%), Gaps = 1/84 (1%)
Query: 29 KEDGQEYAQVLRMLGNGRCEAMCIDGAKRLCHIRGKMHKKVWIGAGDIILVGLRDYQ-DD 87
KE+ + + +MLG R C+DG RL I G++ ++W+ GD+++V + Q D
Sbjct: 17 KEENEILGIIEQMLGASRVRVRCLDGKTRLGRIPGRLKNRIWVREGDVVIVKPWEVQGDQ 76
Query: 88 KADVILKYMPDEARLLKAYGELPE 111
K D+I +Y + LK G L E
Sbjct: 77 KCDIIWRYTKTQVEWLKRKGYLDE 100
>pdb|2DGY|A Chain A, Solution Structure Of The Eukaryotic Initiation Factor 1a
In Mgc11102 Protein
Length = 111
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 1/89 (1%)
Query: 25 ELIFKEDGQEYAQVLRMLGNGRCEAMCIDGAKRLCHIRGKMHKKVWIGAGDIILV-GLRD 83
E I + Q+ +VLR GN E G + L + K K +WI GD ++V + +
Sbjct: 8 EHIVPSNQQQIVRVLRTPGNNLHEVETAQGQRFLVSMPSKYRKNIWIKRGDFLIVDPIEE 67
Query: 84 YQDDKADVILKYMPDEARLLKAYGELPET 112
+ KA++ D R L+ G PE
Sbjct: 68 GEKVKAEISFVLCKDHVRSLQKEGFWPEA 96
>pdb|3HN2|A Chain A, Crystal Structure Of 2-Dehydropantoate 2-Reductase From
Geobacter Metallireducens Gs-15
pdb|3HN2|B Chain B, Crystal Structure Of 2-Dehydropantoate 2-Reductase From
Geobacter Metallireducens Gs-15
pdb|3HN2|C Chain C, Crystal Structure Of 2-Dehydropantoate 2-Reductase From
Geobacter Metallireducens Gs-15
pdb|3HN2|D Chain D, Crystal Structure Of 2-Dehydropantoate 2-Reductase From
Geobacter Metallireducens Gs-15
Length = 312
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 2/58 (3%)
Query: 43 GNGRCEAMCIDGAKRLCHIRGKMHKKVWIGAGDIILVGLRDYQDDKADVILKYMPDEA 100
GNG + I+G L H++G + IG D++LVGL+ + + + + +++ + +E
Sbjct: 41 GNG-LKVFSINGDFTLPHVKGYRAPE-EIGPMDLVLVGLKTFANSRYEELIRPLVEEG 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 = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 6/66 (9%)
Query: 44 NGRCEAMCIDG-AKRLCHIRGKMHKKVWIGAGDIILVGLRDYQDDKADVILKYMPDEARL 102
NGR A+ G +K C G WI D ++ + DY+D +++ + + D+ +
Sbjct: 75 NGRYSALTARGISKETCQKAG-----YWIAKVDGVMYQVADYRDQNGNIVSQKVRDKDKN 129
Query: 103 LKAYGE 108
K G
Sbjct: 130 FKTTGS 135
>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 = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 74 GDIILVGLRDY-QDDKADVILKYMPDEARLLK 104
GD +LVG+ DY QD DV+ +P+ R+++
Sbjct: 20 GDTVLVGITDYAQDALGDVVYVELPEVGRVVE 51
>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 = 26.9 bits (58), Expect = 3.6, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 44 NGRCEAMCIDG-AKRLCHIRGKMHKKVWIGAGDIILVGLRDYQDDKADVILKYMPDEARL 102
NGR A+ G +K C G WI D ++ + DY+D +++ + + D+ +
Sbjct: 12 NGRYSALTARGISKETCQKAG-----YWIAKVDGVMYQVADYRDQNGNIVSQKVRDKDKN 66
Query: 103 LKAYG 107
K G
Sbjct: 67 FKTTG 71
>pdb|3U92|A Chain A, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Kainate And Zinc: P2221 Form
pdb|3U92|B Chain B, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Kainate And Zinc: P2221 Form
pdb|3U93|A Chain A, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Glutamate And Zinc: P2221 Form
pdb|3U93|B Chain B, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Glutamate And Zinc: P2221 Form
pdb|3U94|A Chain A, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Glutamate And Zinc: P21212 Form
pdb|3U94|B Chain B, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Glutamate And Zinc: P21212 Form
pdb|3U94|C Chain C, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Glutamate And Zinc: P21212 Form
pdb|3U94|D Chain D, Crystal Structure Of The Gluk3 Ligand Binding Domain
Complex With Glutamate And Zinc: P21212 Form
Length = 257
Score = 26.9 bits (58), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 41 MLGNGRCEAMCIDGAKRLCHIRG 63
+ GN R E CID K L HI G
Sbjct: 26 LYGNDRFEGYCIDLLKELAHILG 48
>pdb|3S9E|A Chain A, Crystal Structure Of The Kainate Receptor Gluk3 Ligand
Binding Domain In Complex With (S)-Glutamate
pdb|3S9E|B Chain B, Crystal Structure Of The Kainate Receptor Gluk3 Ligand
Binding Domain In Complex With (S)-Glutamate
pdb|4E0W|A Chain A, Crystal Structure Of The Kainate Receptor Gluk3 Ligand
Binding Domain In Complex With Kainate
pdb|4G8N|A Chain A, Crystal Structure Of The Kainate Receptor Gluk3
Ligand-Binding Domain In Complex With The Agonist G8m
Length = 258
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 41 MLGNGRCEAMCIDGAKRLCHIRG 63
+ GN R E CID K L HI G
Sbjct: 28 LYGNDRFEGYCIDLLKELAHILG 50
>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 = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 36 AQVLRMLGNGRCEAMCIDGAKRLCHIRGKMHKK-VWIGAGDIILVGLRDYQDDKADVILK 94
+V+ L N +G K L HI GKM + + I D ++V L Y + ++ +
Sbjct: 18 GRVVEPLPNAMFRIELENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVYR 77
Query: 95 Y 95
Y
Sbjct: 78 Y 78
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 0.142 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,837,092
Number of Sequences: 62578
Number of extensions: 141123
Number of successful extensions: 312
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 304
Number of HSP's gapped (non-prelim): 12
length of query: 145
length of database: 14,973,337
effective HSP length: 89
effective length of query: 56
effective length of database: 9,403,895
effective search space: 526618120
effective search space used: 526618120
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: 47 (22.7 bits)