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= 024238
(270 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G91|C Chain C, Ccaat-Binding Complex From Aspergillus Nidulans
pdb|4G92|C Chain C, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
Length = 119
Score = 140 bits (354), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 61/98 (62%), Positives = 84/98 (85%), Gaps = 1/98 (1%)
Query: 88 FWSNQMQEIEQ-TADFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTL 146
+W + + +E D+K H LPLARIKK+MKAD +V+MISAEAP++FAK C++FI ELT+
Sbjct: 22 YWQHVINHLESDNHDYKIHQLPLARIKKVMKADPEVKMISAEAPILFAKGCDVFITELTM 81
Query: 147 RSWIHTEENKRRTLQKNDIAAAISRTDVFDFLVDIIPR 184
R+WIH E+NKRRTLQ++DIAAA+S++D+FDFL+DI+PR
Sbjct: 82 RAWIHAEDNKRRTLQRSDIAAALSKSDMFDFLIDIVPR 119
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 139 bits (350), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 66/96 (68%), Positives = 80/96 (83%), Gaps = 2/96 (2%)
Query: 91 NQMQEIEQ--TADFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTLRS 148
+ M+EI DF+ LPLARIKKIMK DEDV+MISAEAPV+FAKA ++FI ELTLR+
Sbjct: 2 SHMEEIRNLTVKDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRA 61
Query: 149 WIHTEENKRRTLQKNDIAAAISRTDVFDFLVDIIPR 184
WIHTE+NKRRTLQ+NDIA AI++ D FDFL+DI+PR
Sbjct: 62 WIHTEDNKRRTLQRNDIAMAITKFDQFDFLIDIVPR 97
>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 139 bits (350), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 66/94 (70%), Positives = 79/94 (84%), Gaps = 2/94 (2%)
Query: 93 MQEIEQ--TADFKNHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTLRSWI 150
M+EI DF+ LPLARIKKIMK DEDV+MISAEAPV+FAKA ++FI ELTLR+WI
Sbjct: 1 MEEIRNLTVKDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWI 60
Query: 151 HTEENKRRTLQKNDIAAAISRTDVFDFLVDIIPR 184
HTE+NKRRTLQ+NDIA AI++ D FDFL+DI+PR
Sbjct: 61 HTEDNKRRTLQRNDIAMAITKFDQFDFLIDIVPR 94
>pdb|2BYK|A Chain A, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYK|C Chain C, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|A Chain A, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|C Chain C, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
Length = 140
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 44/82 (53%), Gaps = 5/82 (6%)
Query: 107 LPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTLRSWIHTEENKRR---TLQKN 163
LPL+R++ IMK+ D +I+ E + K E+F+ L +TEE +R L+
Sbjct: 20 LPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLA--GAAYTEEFGQRPGEALKYE 77
Query: 164 DIAAAISRTDVFDFLVDIIPRD 185
++ +++ +FL+ I+P+
Sbjct: 78 HLSQVVNKNKNLEFLLQIVPQK 99
>pdb|1JFI|A Chain A, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 98
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 38/66 (57%)
Query: 104 NHSLPLARIKKIMKADEDVRMISAEAPVIFAKACEMFILELTLRSWIHTEENKRRTLQKN 163
N P ARIKKIM+ DE++ ++A PVI ++A E+F+ L ++ T+ +T+ +
Sbjct: 9 NARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTS 68
Query: 164 DIAAAI 169
+ I
Sbjct: 69 HLKQCI 74
>pdb|2VPW|A Chain A, Polysulfide Reductase With Bound Menaquinone
pdb|2VPW|E Chain E, Polysulfide Reductase With Bound Menaquinone
pdb|2VPX|A Chain A, Polysulfide Reductase With Bound Quinone (uq1)
pdb|2VPX|E Chain E, Polysulfide Reductase With Bound Quinone (uq1)
pdb|2VPY|A Chain A, Polysulfide Reductase With Bound Quinone Inhibitor,
Pentachlorophenol (Pcp)
pdb|2VPY|E Chain E, Polysulfide Reductase With Bound Quinone Inhibitor,
Pentachlorophenol (Pcp)
pdb|2VPZ|A Chain A, Polysulfide Reductase Native Structure
pdb|2VPZ|E Chain E, Polysulfide Reductase Native Structure
Length = 765
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 123 RMISAEAPV-IFAKACEMFIL-ELTLRS--WIHTEENKRRTLQKNDIAAAISRTDVFDFL 178
R++ +PV FA+ ++L E+ + WIH EE KR L++ D +++ V +
Sbjct: 620 RLLYGRSPVHTFARTQNNWVLMEMDPENEVWIHKEEAKRLGLKEGDYVMLVNQDGVKEGP 679
Query: 179 VDIIPRDELKEEGLGVTKG 197
V + P ++++ + + G
Sbjct: 680 VRVKPTARIRKDCVYIVHG 698
>pdb|2WME|A Chain A, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
pdb|2WME|B Chain B, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
pdb|2WME|D Chain D, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
pdb|2WME|F Chain F, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
pdb|2WME|G Chain G, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
pdb|2WME|H Chain H, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
Length = 490
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 19 MGVVAGAGQMSYPP----YHTAPLVASGTPAVAVPSPTQP 54
+GVVAG G +YP + +AP +A+G + PS P
Sbjct: 143 LGVVAGIGAWNYPVQIALWKSAPALAAGNAMIFKPSEVTP 182
>pdb|2WOX|A Chain A, Betaine Aldehyde Dehydrogenase From Pseudomonas Aeruginosa
With Nad(P)h-Catalytic Thiol Adduct.
pdb|2WOX|B Chain B, Betaine Aldehyde Dehydrogenase From Pseudomonas Aeruginosa
With Nad(P)h-Catalytic Thiol Adduct.
pdb|2WOX|C Chain C, Betaine Aldehyde Dehydrogenase From Pseudomonas Aeruginosa
With Nad(P)h-Catalytic Thiol Adduct.
pdb|2WOX|D Chain D, Betaine Aldehyde Dehydrogenase From Pseudomonas Aeruginosa
With Nad(P)h-Catalytic Thiol Adduct
Length = 489
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 19 MGVVAGAGQMSYPP----YHTAPLVASGTPAVAVPSPTQP 54
+GVVAG G +YP + +AP +A+G + PS P
Sbjct: 142 LGVVAGIGAWNYPVQIALWKSAPALAAGNAMIFKPSEVTP 181
>pdb|2WME|C Chain C, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
pdb|2WME|E Chain E, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase From Pseudomonas Aeruginosa
Length = 490
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 19 MGVVAGAGQMSYPP----YHTAPLVASGTPAVAVPSPTQP 54
+GVVAG G +YP + +AP +A+G + PS P
Sbjct: 143 LGVVAGIGAWNYPVQIALWKSAPALAAGNAMIFKPSEVTP 182
>pdb|2XDR|A Chain A, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant E252a From Pseudomonas Aeruginosa
pdb|2XDR|B Chain B, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant E252a From Pseudomonas Aeruginosa
pdb|2XDR|C Chain C, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant E252a From Pseudomonas Aeruginosa
pdb|2XDR|D Chain D, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant E252a From Pseudomonas Aeruginosa
Length = 489
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 19 MGVVAGAGQMSYPP----YHTAPLVASGTPAVAVPSPTQP 54
+GVVAG G +YP + +AP +A+G + PS P
Sbjct: 142 LGVVAGIGAWNYPVQIALWKSAPALAAGNAMIFKPSEVTP 181
>pdb|3ZQA|A Chain A, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant C286a From Pseudomonas Aeruginosa
In Complex With Nadph
pdb|3ZQA|B Chain B, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant C286a From Pseudomonas Aeruginosa
In Complex With Nadph
pdb|3ZQA|C Chain C, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant C286a From Pseudomonas Aeruginosa
In Complex With Nadph
pdb|3ZQA|D Chain D, Crystallographic Structure Of Betaine Aldehyde
Dehydrogenase Mutant C286a From Pseudomonas Aeruginosa
In Complex With Nadph
Length = 490
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 19 MGVVAGAGQMSYPP----YHTAPLVASGTPAVAVPSPTQP 54
+GVVAG G +YP + +AP +A+G + PS P
Sbjct: 143 LGVVAGIGAWNYPVQIALWKSAPALAAGNAMIFKPSEVTP 182
>pdb|2IB1|A Chain A, Solution Structure Of P45 Death Domain
Length = 91
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 21/51 (41%)
Query: 128 EAPVIFAKACEMFILELTLRSWIHTEENKRRTLQKNDIAAAISRTDVFDFL 178
+A + AC+ LR+W E N+ D AAI R DV L
Sbjct: 31 QAEAVETMACDQMPAYTLLRNWAAQEGNRATLRVLEDALAAIGREDVVQVL 81
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
0.317 0.134 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,599,243
Number of Sequences: 62578
Number of extensions: 249979
Number of successful extensions: 647
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 19
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
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)