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= 036294
(833 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I48|A Chain A, Crystal Structure Of Bicarbonate Transport Protein Cmpa
From Synechocystis Sp. Pcc 6803 In Complex With Carbonic
Acid
pdb|2I49|A Chain A, Crystal Structure Of Apo Form Of Bicarbonate Transport
Protein Cmpa From Synechocystis Sp. Pcc 6803
pdb|2I4B|A Chain A, Crystal Structure Of Bicarbonate Transport Protein Cmpa
From Synechocystis Sp. Pcc 6803 In Complex With
Bicarbonate And Calcium
pdb|2I4C|A Chain A, Crystal Structure Of Bicarbonate Transport Protein Cmpa
From Synechocystis Sp. Pcc 6803 In Complex With
Bicarbonate And Calcium
Length = 429
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 216 MKAPTLAELTIEDEE--LRRLRRNGMYLRERINVPKAGLTQDVMRKIHDKWRKDELVRLK 273
+++P + T+ D + + ++ +Y ++ I K HD W E +R
Sbjct: 304 LESPFKGQYTMGDGQPAIDDFQKGPLYWKDGIG------NVSYPYKSHDLWFLTESIRWG 357
Query: 274 FHEVLATDMKTAHEIVER 291
FH+ D+ TA +I+++
Sbjct: 358 FHKNAIPDLDTAQKIIDK 375
>pdb|1D3U|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA-
Box Complex From Pyrococcus Woesei
Length = 201
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 44/82 (53%), Gaps = 12/82 (14%)
Query: 529 VEEKVRSKTLE----ATPSGETEGQAPAGT------LAEFYEAQKRWGREVSAEEREKMV 578
+ EKVR + +E A G T G++PAG +A E +KR REV+ E ++
Sbjct: 122 LSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVA--EVARVT 179
Query: 579 EEASKAKHARLVKRIEHKLAVS 600
E + ++ LV++++ K+ ++
Sbjct: 180 EVTVRNRYKELVEKLKIKVPIA 201
>pdb|1AIS|B Chain B, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box
Complex From Pyrococcus Woesei
Length = 200
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 43/80 (53%), Gaps = 12/80 (15%)
Query: 531 EKVRSKTLE----ATPSGETEGQAPAGT------LAEFYEAQKRWGREVSAEEREKMVEE 580
EKVR + +E A G T G++PAG +A E +KR REV+ E ++ E
Sbjct: 123 EKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVA--EVARVTEV 180
Query: 581 ASKAKHARLVKRIEHKLAVS 600
+ ++ LV++++ K+ ++
Sbjct: 181 TVRNRYKELVEKLKIKVPIA 200
>pdb|1RQ8|A Chain A, Solution Structure Of The Hypothetical Protein Sav1595
From Staphylococcus Aureus, A Putative Rna Binding
Protein
Length = 104
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 33/63 (52%)
Query: 247 VPKAGLTQDVMRKIHDKWRKDELVRLKFHEVLATDMKTAHEIVERRTGGLVIWRAGSVMV 306
+ K G+ ++++++I D EL+++ + D K E + T ++ GS++V
Sbjct: 23 IGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQVIGSMIV 82
Query: 307 VYR 309
+YR
Sbjct: 83 IYR 85
>pdb|3B7K|A Chain A, Human Acyl-Coenzyme A Thioesterase 12
pdb|3B7K|B Chain B, Human Acyl-Coenzyme A Thioesterase 12
pdb|3B7K|C Chain C, Human Acyl-Coenzyme A Thioesterase 12
Length = 333
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 32/63 (50%)
Query: 722 RRPISLRPRNLLTKAKALKRSVAMQRHEALSQHISDLENTIEQMKKEIGVSKDEEDGNIR 781
+ I L+P LLT+ ++ ++A +R + QH N +++ K + DEE+G +
Sbjct: 135 KEKIHLKPVTLLTEQDHVEHNLAAERRKVRLQHEDTFNNLMKESSKFDDLIFDEEEGAVS 194
Query: 782 CSG 784
G
Sbjct: 195 TRG 197
>pdb|1LN4|A Chain A, Crystal Structure Of E. Coli Yhby
Length = 104
Score = 29.6 bits (65), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 251 GLTQDVMRKIHDKWRKDELVRLKFHEVLATDMKTAHEIVE---RRTGGLVIWRAGSVMVV 307
GLT+ V+ +I EL+++K + D +T IVE R TG + G +V+
Sbjct: 28 GLTEGVLAEIEQALEHHELIKVK---IATEDRETKTLIVEAIVRETGACNVQVIGKTLVL 84
Query: 308 YR 309
YR
Sbjct: 85 YR 86
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
0.315 0.132 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,771,524
Number of Sequences: 62578
Number of extensions: 878591
Number of successful extensions: 2111
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2106
Number of HSP's gapped (non-prelim): 15
length of query: 833
length of database: 14,973,337
effective HSP length: 107
effective length of query: 726
effective length of database: 8,277,491
effective search space: 6009458466
effective search space used: 6009458466
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)