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= 023716
         (278 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1L9X|A Chain A, Structure Of Gamma-Glutamyl Hydrolase
 pdb|1L9X|B Chain B, Structure Of Gamma-Glutamyl Hydrolase
 pdb|1L9X|C Chain C, Structure Of Gamma-Glutamyl Hydrolase
 pdb|1L9X|D Chain D, Structure Of Gamma-Glutamyl Hydrolase
          Length = 315

 Score =  129 bits (323), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 84/239 (35%), Positives = 131/239 (54%), Gaps = 16/239 (6%)

Query: 46  LVPRCP--VPDSKLNYRPVIGIVTHPGDGASGRLNNATNASYIAASYVKFVESAGARVIP 103
           LVPR     P      +P+IGI+         ++       YIAASYVK++ESAGARV+P
Sbjct: 14  LVPRGSHMRPHGDTAKKPIIGILMQK---CRNKVMKNYGRYYIAASYVKYLESAGARVVP 70

Query: 104 LIYNEPE---DVLFEKLELVNGVLYTGGWAK-DGLYYAIVEKVFKKI-LEKNDAGDHFPL 158
           +  +  E   ++LF+    +NG+L+ GG        YA V K+F  + ++  D GD+FP+
Sbjct: 71  VRLDLTEKDYEILFKS---INGILFPGGSVDLRRSDYAKVAKIFYNLSIQSFDDGDYFPV 127

Query: 159 YAHCLGFELLTMIISKDKNILESFNAADQASTLQFMENTSIEGTVFQRFPPKLIKKLSTD 218
           +  CLGFE L+++IS +  +L + +  D A  L F     +   +FQ FP +L+  L+ +
Sbjct: 128 WGTCLGFEELSLLISGE-CLLTATDTVDVAMPLNFT-GGQLHSRMFQNFPTELLLSLAVE 185

Query: 219 CLVMQNHHYGISPETLRKNLDLSRFFKMLTTSADEDNKVYVSTVQAYDYPVTAFQWHPE 277
            L    H + +S +    N  L +FF +LTT+ D   + ++ST++ Y YPV   QWHPE
Sbjct: 186 PLTANFHKWSLSVKNFTMNEKLKKFFNVLTTNTDGKIE-FISTMEGYKYPVYGVQWHPE 243


>pdb|1BT4|A Chain A, Phosphoserine Aminotransferase From Bacillus Circulans
           Subsp. Alkalophilus
 pdb|1W3U|A Chain A, Crystal Structure Of Phosphoserine Aminotransferase From
           Bacillus Circulans Var. Alkalophilus
 pdb|2C0R|A Chain A, Crystal Structure Of Phosphoserine Aminotransferase From
           Bacillus Circulans Var. Alkalophilus At Ph 8.5
 pdb|2C0R|B Chain B, Crystal Structure Of Phosphoserine Aminotransferase From
           Bacillus Circulans Var. Alkalophilus At Ph 8.5
          Length = 362

 Score = 29.3 bits (64), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 179 LESFNAADQASTLQFMENTSIEGTVFQRFPPK----LIKKLSTDCL 220
           L+     D A+ L    N +IEG  F+ FP      LI  +S+D L
Sbjct: 134 LQEIQLQDNAAYLHLTSNETIEGAQFKAFPDTGSVPLIGDMSSDIL 179


>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
          Transcriptional Activator Complex
          Length = 387

 Score = 28.1 bits (61), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 2/65 (3%)

Query: 21 EAQSKILLPSQRQRQQNDAVSSLSVLVPRCPVPDSKLNYRPVIGIVTHPGDGASGRLNNA 80
          EA S+I    +R+ + N  +  L+ LVP C     KL+   V+ +         G  N  
Sbjct: 15 EAHSQI--EKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGATNPY 72

Query: 81 TNASY 85
          T A+Y
Sbjct: 73 TEANY 77


  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
   0.319    0.135    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,284,494
Number of Sequences: 62578
Number of extensions: 331295
Number of successful extensions: 732
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 727
Number of HSP's gapped (non-prelim): 5
length of query: 278
length of database: 14,973,337
effective HSP length: 98
effective length of query: 180
effective length of database: 8,840,693
effective search space: 1591324740
effective search space used: 1591324740
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: 51 (24.3 bits)