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= 015752
(401 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HLP|A Chain A, Crystal Structure Of The E267r Mutant Of A Halophilic
Malate Dehydrogenase In The Apo Form
pdb|2HLP|B Chain B, Crystal Structure Of The E267r Mutant Of A Halophilic
Malate Dehydrogenase In The Apo Form
Length = 303
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 51/103 (49%), Gaps = 6/103 (5%)
Query: 298 LDDVFDDSEIWIDVEELLPDDENGSRVFITVTDP-DLLASLEMENGEKIRLDSVLFGGPL 356
+D D++ I D++ L D+ N + +T ++P DLL E G++ R + FGG
Sbjct: 89 IDLAGDNAPIMEDIQSSL-DEHNDDYISLTTSNPVDLLNRHLYEAGDRSREQVIGFGG-- 145
Query: 357 IRLKHEAWQFFILHYGSMPLENYLQGEAFRQLGDKFVLCWSYL 399
RL +++ + P++N ++G + GD V +S +
Sbjct: 146 -RLDSARFRYVLSEEFDAPVQN-VEGTILGEHGDAQVPVFSKV 186
>pdb|2J5K|A Chain A, 2.0 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui (radiation
Damage Series)
pdb|2J5K|B Chain B, 2.0 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui (radiation
Damage Series)
pdb|2J5K|C Chain C, 2.0 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui (radiation
Damage Series)
pdb|2J5K|D Chain D, 2.0 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui (radiation
Damage Series)
pdb|2J5Q|A Chain A, 2.15 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After First
Radiation Burn (Radiation Damage Series)
pdb|2J5Q|B Chain B, 2.15 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After First
Radiation Burn (Radiation Damage Series)
pdb|2J5Q|C Chain C, 2.15 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After First
Radiation Burn (Radiation Damage Series)
pdb|2J5Q|D Chain D, 2.15 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After First
Radiation Burn (Radiation Damage Series)
pdb|2J5R|A Chain A, 2.25 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After Second
Radiation Burn (Radiation Damage Series)
pdb|2J5R|B Chain B, 2.25 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After Second
Radiation Burn (Radiation Damage Series)
pdb|2J5R|C Chain C, 2.25 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After Second
Radiation Burn (Radiation Damage Series)
pdb|2J5R|D Chain D, 2.25 A Resolution Structure Of The Wild Type Malate
Dehydrogenase From Haloarcula Marismortui After Second
Radiation Burn (Radiation Damage Series)
Length = 304
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 303 DDSEIWIDVEELLPDDENGSRVFITVTDP-DLLASLEMENGEKIRLDSVLFGGPLIRLKH 361
D++ I D++ L D+ N + +T ++P DLL E G++ R + FGG RL
Sbjct: 95 DNAPIMEDIQSSL-DEHNDDYISLTTSNPVDLLNRHLYEAGDRSREQVIGFGG---RLDS 150
Query: 362 EAWQFFILHYGSMPLENYLQGEAFRQLGDKFVLCWSYL 399
+++ + P++N ++G + GD V +S +
Sbjct: 151 ARFRYVLSEEFDAPVQN-VEGTILGEHGDAQVPVFSKV 187
>pdb|1HLP|A Chain A, Structural Features Stabilizing Halophilic Malate
Dehydrogenase From An Archaebacterium
pdb|1HLP|B Chain B, Structural Features Stabilizing Halophilic Malate
Dehydrogenase From An Archaebacterium
pdb|1D3A|A Chain A, Crystal Structure Of The Wild Type Halophilic Malate
Dehydrogenase In The Apo Form
pdb|1D3A|B Chain B, Crystal Structure Of The Wild Type Halophilic Malate
Dehydrogenase In The Apo Form
Length = 303
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 303 DDSEIWIDVEELLPDDENGSRVFITVTDP-DLLASLEMENGEKIRLDSVLFGGPLIRLKH 361
D++ I D++ L D+ N + +T ++P DLL E G++ R + FGG RL
Sbjct: 94 DNAPIMEDIQSSL-DEHNDDYISLTTSNPVDLLNRHLYEAGDRSREQVIGFGG---RLDS 149
Query: 362 EAWQFFILHYGSMPLENYLQGEAFRQLGDKFVLCWSYL 399
+++ + P++N ++G + GD V +S +
Sbjct: 150 ARFRYVLSEEFDAPVQN-VEGTILGEHGDAQVPVFSKV 186
>pdb|2X0R|A Chain A, R207s,R292s Mutant Of Malate Dehydrogenase From The
Halophilic Archaeon Haloarcula Marismortui (Holo Form)
pdb|2X0R|B Chain B, R207s,R292s Mutant Of Malate Dehydrogenase From The
Halophilic Archaeon Haloarcula Marismortui (Holo Form)
Length = 304
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 51/103 (49%), Gaps = 6/103 (5%)
Query: 298 LDDVFDDSEIWIDVEELLPDDENGSRVFITVTDP-DLLASLEMENGEKIRLDSVLFGGPL 356
+D D++ I D++ L D+ N + +T ++P DLL E G++ R + FGG
Sbjct: 90 IDLAGDNAPIMEDIQSSL-DEHNDDYISLTTSNPVDLLNRHLYEAGDRSREQVIGFGG-- 146
Query: 357 IRLKHEAWQFFILHYGSMPLENYLQGEAFRQLGDKFVLCWSYL 399
RL +++ + P++N ++G + GD V +S +
Sbjct: 147 -RLDSARFRYVLSEEFDAPVQN-VEGTILGEHGDAQVPVFSKV 187
>pdb|1O6Z|A Chain A, 1.95 A Resolution Structure Of (r207s,r292s) Mutant Of
Malate Dehydrogenase From The Halophilic Archaeon
Haloarcula Marismortui (holo Form)
pdb|1O6Z|B Chain B, 1.95 A Resolution Structure Of (r207s,r292s) Mutant Of
Malate Dehydrogenase From The Halophilic Archaeon
Haloarcula Marismortui (holo Form)
pdb|1O6Z|C Chain C, 1.95 A Resolution Structure Of (r207s,r292s) Mutant Of
Malate Dehydrogenase From The Halophilic Archaeon
Haloarcula Marismortui (holo Form)
pdb|1O6Z|D Chain D, 1.95 A Resolution Structure Of (r207s,r292s) Mutant Of
Malate Dehydrogenase From The Halophilic Archaeon
Haloarcula Marismortui (holo Form)
Length = 303
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 303 DDSEIWIDVEELLPDDENGSRVFITVTDP-DLLASLEMENGEKIRLDSVLFGGPLIRLKH 361
D++ I D++ L D+ N + +T ++P DLL E G++ R + FGG RL
Sbjct: 94 DNAPIMEDIQSSL-DEHNDDYISLTTSNPVDLLNRHLYEAGDRSREQVIGFGG---RLDS 149
Query: 362 EAWQFFILHYGSMPLENYLQGEAFRQLGDKFVLCWSYL 399
+++ + P++N ++G + GD V +S +
Sbjct: 150 ARFRYVLSEEFDAPVQN-VEGTILGEHGDAQVPVFSKV 186
>pdb|2PZZ|A Chain A, 2.2 A Resolution Crystal Structure Of Upf0201 Protein From
Methanococcus Jannaschii
pdb|2PZZ|B Chain B, 2.2 A Resolution Crystal Structure Of Upf0201 Protein From
Methanococcus Jannaschii
pdb|2PZZ|C Chain C, 2.2 A Resolution Crystal Structure Of Upf0201 Protein From
Methanococcus Jannaschii
pdb|2PZZ|D Chain D, 2.2 A Resolution Crystal Structure Of Upf0201 Protein From
Methanococcus Jannaschii
Length = 147
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 235 VKFYFDCHAWVRVSLDYDFRRILDDIIKSVIPPSRVSVIIGED 277
V F D H + V + D + IIK + P ++ VII ED
Sbjct: 94 VNFDIDTHGGIFVKILADENEDIXKIIKDIAPRTKGGVIINED 136
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
0.323 0.142 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,515,697
Number of Sequences: 62578
Number of extensions: 476544
Number of successful extensions: 993
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 992
Number of HSP's gapped (non-prelim): 7
length of query: 401
length of database: 14,973,337
effective HSP length: 101
effective length of query: 300
effective length of database: 8,652,959
effective search space: 2595887700
effective search space used: 2595887700
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: 52 (24.6 bits)