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= 029000
         (200 letters)

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

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



>pdb|2POK|A Chain A, Crystal Structure Of A M20 Family Metallo Peptidase From
           Streptococcus Pneumoniae
 pdb|2POK|B Chain B, Crystal Structure Of A M20 Family Metallo Peptidase From
           Streptococcus Pneumoniae
          Length = 481

 Score = 32.0 bits (71), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 30/130 (23%), Positives = 48/130 (36%), Gaps = 32/130 (24%)

Query: 3   PWKL--------HVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPHPKEQVYGF 54
           PW L           G++   GL  +   P E  M  L+    R      P    ++YG 
Sbjct: 253 PWYLLQALQSLRAADGRILVEGLYEEVQEPNEREMALLETYGQR-----NPEEVSRIYGL 307

Query: 55  ETPS------------------TMKPTQWSYPGGGINQI-PGECTVSGDVRLTPFYNVTD 95
           E P                    ++  Q  Y G G+  I P E +   +VRL P     D
Sbjct: 308 ELPLLQEERMAFLKRFFFDPALNIEGIQSGYQGQGVKTILPAEASAKLEVRLVPGLEPHD 367

Query: 96  VMKRLQEYVD 105
           V++++++ +D
Sbjct: 368 VLEKIRKQLD 377


>pdb|1VGY|A Chain A, Crystal Structure Of Succinyl Diaminopimelate
           Desuccinylase
 pdb|1VGY|B Chain B, Crystal Structure Of Succinyl Diaminopimelate
           Desuccinylase
          Length = 393

 Score = 30.4 bits (67), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 26/105 (24%), Positives = 41/105 (39%), Gaps = 16/105 (15%)

Query: 5   KLHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKD----FPPHPKEQVYGFETPSTM 60
            L V GK  H   PH AINP+     AL  +    + +    FP            P++ 
Sbjct: 188 NLTVKGKQGHIAYPHLAINPVHTFAPALLELTQEVWDEGNEYFP------------PTSF 235

Query: 61  KPTQWSYPGGGINQIPGECTVSGDVRLTPFYNVTDVMKRLQEYVD 105
           + +  +   G  N IPGE  V  + R +       + +R+   +D
Sbjct: 236 QISNINGGTGATNVIPGELNVKFNFRFSTESTEAGLKQRVHAILD 280


>pdb|1XMB|A Chain A, X-ray Structure Of Iaa-aminoacid Hydrolase From
           Arabidopsis Thaliana Gene At5g56660
 pdb|2Q43|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
           Iaa-Aminoacid Hydrolase From Arabidopsis Thaliana Gene
           At5g56660
          Length = 418

 Score = 29.6 bits (65), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/97 (24%), Positives = 42/97 (43%), Gaps = 12/97 (12%)

Query: 8   VTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPHPKEQVYGFETPSTMKPTQWSY 67
           +TGK  H+ +P   I+P+  A   +  +Q    ++  P   + V    T S +       
Sbjct: 204 ITGKGGHAAIPQHTIDPVVAASSIVLSLQQLVSRETDPLDSKVV----TVSKVN------ 253

Query: 68  PGGGINQIPGECTVSGDVRLTPFYNVTDVMKRLQEYV 104
            G   N IP   T+ G +R   F   T + +R++E +
Sbjct: 254 GGNAFNVIPDSITIGGTLR--AFTGFTQLQQRVKEVI 288


>pdb|2L3J|A Chain A, The Solution Structure Of The Adar2 Dsrbm-Rna Complex
           Reveals A Sequence-Specific Read Out Of The Minor Groove
          Length = 236

 Score = 28.1 bits (61), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 32/84 (38%), Gaps = 5/84 (5%)

Query: 5   KLHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPHPKEQVYGFETPSTMKPTQ 64
           KLH   K   S +     +   LAM     + T F  D    P     GFETP   +P  
Sbjct: 58  KLHAAEKALRSFVQFPNASEAHLAMGRTLSVNTDFTSDQADFPDTLFNGFETPDKSEPPF 117

Query: 65  WSYPGGGINQIPGECTVSGDVRLT 88
           +    G  +      + SGDV L+
Sbjct: 118 YVGSNGDDS-----FSSSGDVSLS 136


>pdb|3S99|A Chain A, Crystal Structure Of A Basic Membrane Lipoprotein From
           Brucella Melitensis, Iodide Soak
          Length = 356

 Score = 27.7 bits (60), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 5/70 (7%)

Query: 83  GDVRLTPFYNVTDVMKRLQEYVDDINENIEKLDTRGPV-----SKYVLPDENIRGRHVLS 137
           G V++ PF N+ D +K+L E  +   ++ E     GP+     S+++   E    + +L 
Sbjct: 283 GLVKMAPFTNMPDDVKKLAEETEARIKSGELNPFTGPIKKQDGSEWLKAGEKADDQTLLG 342

Query: 138 LHYLTLGRDD 147
           +++   G DD
Sbjct: 343 MNFYVAGVDD 352


  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
   0.324    0.141    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,427,049
Number of Sequences: 62578
Number of extensions: 277691
Number of successful extensions: 583
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 581
Number of HSP's gapped (non-prelim): 6
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)