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= 042838
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OLX|B Chain B, Roles Of His291-alpha And His146-beta' In The Reductive
Acylation Reaction Catalyzed By Human Branched-chain
Alpha-ketoacid Dehydrogenase
Length = 342
Score = 29.6 bits (65), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 11/49 (22%)
Query: 17 YDCGNATIRYPFG-IGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
++CG+ TIR P+G +G G Y+S SP+AF A ++V+
Sbjct: 125 FNCGSLTIRSPWGCVGHGAL----------YASQSPEAFFAHCPGIKVV 163
>pdb|1DTW|B Chain B, Human Branched-Chain Alpha-Keto Acid Dehydrogenase
pdb|1OLS|B Chain B, Roles Of His291-Alpha And His146-Beta' In The Reductive
Acylation Reaction Catalyzed By Human Branched-Chain
Alpha-Ketoacid Dehydrogenase
pdb|1OLU|B Chain B, Roles Of His291-Alpha And His146-Beta' In The Reductive
Acylation Reaction Catalyzed By Human Branched-Chain
Alpha-Ketoacid Dehydrogenase
pdb|1V11|B Chain B, Crosstalk Between Cofactor Binding And The Phosphorylation
Loop Conformation In The Bckd Machine
pdb|1V16|B Chain B, Crosstalk Between Cofactor Binding And The Phosphorylation
Loop Conformation In The Bckd Machine
pdb|1V1M|B Chain B, Crosstalk Between Cofactor Binding And The Phosphorylation
Loop Conformation In The Bckd Machine
pdb|1V1R|B Chain B, Crosstalk Between Cofactor Binding And The Phosphorylation
Loop Conformation In The Bckd Machine
pdb|1U5B|B Chain B, Crystal Structure Of The Human Mitochondrial
Branched-Chain Alpha- Ketoacid Dehydrogenase
pdb|1X7W|B Chain B, Crystal Structure Of The Human Mitochondrial
Branched-Chain Alpha- Ketoacid Dehydrogenase
pdb|1X7X|B Chain B, Crystal Structure Of The Human Mitochondrial
Branched-Chain Alpha- Ketoacid Dehydrogenase
pdb|1X7Y|B Chain B, Crystal Structure Of The Human Mitochondrial
Branched-chain Alpha- Ketoacid Dehydrogenase
pdb|1X7Z|B Chain B, Crystal Structure Of The Human Mitochondrial
Branched-Chain Alpha- Ketoacid Dehydrogenase
pdb|1X80|B Chain B, Crystal Structure Of The Human Mitochondrial
Branched-chain Alpha- Ketoacid Dehydrogenase
pdb|1WCI|B Chain B, Reactivity Modulation Of Human Branched-chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BEU|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BEV|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BEW|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BFB|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BFC|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BFD|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BFE|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
pdb|2BFF|B Chain B, Reactivity Modulation Of Human Branched-Chain Alpha-
Ketoacid Dehydrogenase By An Internal Molecular Switch
Length = 342
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 11/49 (22%)
Query: 17 YDCGNATIRYPFG-IGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
++CG+ TIR P+G +G G Y S SP+AF A ++V+
Sbjct: 125 FNCGSLTIRSPWGCVGHGAL----------YHSQSPEAFFAHCPGIKVV 163
>pdb|2J9F|B Chain B, Human Branched-Chain Alpha-Ketoacid Dehydrogenase-
Decarboxylase E1b
pdb|2J9F|D Chain D, Human Branched-Chain Alpha-Ketoacid Dehydrogenase-
Decarboxylase E1b
Length = 350
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 11/49 (22%)
Query: 17 YDCGNATIRYPFG-IGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
++CG+ TIR P+G +G G Y S SP+AF A ++V+
Sbjct: 125 FNCGSLTIRSPWGCVGHGAL----------YHSQSPEAFFAHCPGIKVV 163
>pdb|1IDO|A Chain A, I-Domain From Integrin Cr3, Mg2+ Bound
Length = 189
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 136 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 179
>pdb|1M1U|A Chain A, An Isoleucine-Based Allosteric Switch Controls Affinity
And Shape Shifting In Integrin Cd11b A-Domain
Length = 195
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 142 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 185
>pdb|1NA5|A Chain A, Integrin Alpha M I Domain
Length = 197
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 135 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 178
>pdb|1MF7|A Chain A, Integrin Alpha M I Domain
Length = 194
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 135 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 178
>pdb|1N9Z|A Chain A, Integrin Alpha M I Domain Mutant
Length = 192
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 135 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 178
>pdb|1JLM|A Chain A, I-Domain From Integrin Cr3, Mn2+ Bound
Length = 192
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 136 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 179
>pdb|1IDN|1 Chain 1, Mac-1 I Domain Metal Free
pdb|1IDN|2 Chain 2, Mac-1 I Domain Metal Free
pdb|1BHO|1 Chain 1, Mac-1 I Domain Magnesium Complex
pdb|1BHO|2 Chain 2, Mac-1 I Domain Magnesium Complex
Length = 190
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 131 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 174
>pdb|1BHQ|1 Chain 1, Mac-1 I Domain Cadmium Complex
pdb|1BHQ|2 Chain 2, Mac-1 I Domain Cadmium Complex
Length = 189
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 130 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 173
>pdb|3Q3G|G Chain G, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|E Chain E, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|I Chain I, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|L Chain L, Crystal Structure Of A-Domain In Complex With Antibody
Length = 190
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 131 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 174
>pdb|3QA3|G Chain G, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|E Chain E, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|I Chain I, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|L Chain L, Crystal Structure Of A-Domain In Complex With Antibody
Length = 190
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 21 NATIRYPFGIGEGCYFDKSFEVICDYSSGSPKAFLASINNLQVL 64
IRY G+G+ +KS + + +S P+ + +NN + L
Sbjct: 131 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEAL 174
>pdb|3GNO|A Chain A, Crystal Structure Of A Rice Os3bglu6 Beta-glucosidase
pdb|3GNP|A Chain A, Crystal Structure Of A Rice Os3bglu6 Beta-Glucosidase With
Octyl-Beta- D-Thio-Glucoside
pdb|3GNR|A Chain A, Crystal Structure Of A Rice Os3bglu6 Beta-glucosidase With
Covalently Bound 2-deoxy-2-fluoroglucoside To The
Catalytic Nucleophile E396
Length = 488
Score = 26.6 bits (57), Expect = 6.9, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 114 IGCNNYTTIIKRQNDSSVFGGCLSISTCD 142
+G N+YTT R N++++ G L+ + D
Sbjct: 316 VGINHYTTYYTRHNNTNIIGTLLNNTLAD 344
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 0.138 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,943,213
Number of Sequences: 62578
Number of extensions: 187962
Number of successful extensions: 319
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 308
Number of HSP's gapped (non-prelim): 14
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)