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= 021906
         (305 letters)

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

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



>pdb|1V31|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
           Hypothetical Protein At5g14170 From Arabidopsis Thaliana
          Length = 93

 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 18/69 (26%), Positives = 38/69 (55%)

Query: 146 LSPQLQEFIGVTELARTEVVKQLWAYIREKDLQDPNNRRNIVCDERLRALFGVDTINMFQ 205
           LS  L + +G+    R  ++  +W Y++ + LQ+PN+     CD  L+ +FG + +    
Sbjct: 14  LSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTM 73

Query: 206 MNKALSKHI 214
           +++ +S H+
Sbjct: 74  VSQKISHHL 82



 Score = 32.0 bits (71), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 255 GKSGFLAPLQLSDALIKFLGTGESALPRSDVIKRMWDYIKEKNLQ 299
           G SG     +LS AL+  LG      PR  +I  +W Y+K + LQ
Sbjct: 4   GSSGVPEKFKLSTALMDVLGIEVETRPR--IIAAIWHYVKARKLQ 46


>pdb|1V32|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
           Hypothetical Protein At5g08430 From Arabidopsis Thaliana
          Length = 101

 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 34/55 (61%)

Query: 159 LARTEVVKQLWAYIREKDLQDPNNRRNIVCDERLRALFGVDTINMFQMNKALSKH 213
           ++R +V   +  YI ++ L DP+N++ +VCD+RL  LFG  TI   ++   L KH
Sbjct: 35  ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 89


>pdb|1UHR|A Chain A, Solution Structure Of The Swib Domain Of Mouse Brg1-
           Associated Factor 60a
          Length = 93

 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 38/71 (53%)

Query: 146 LSPQLQEFIGVTELARTEVVKQLWAYIREKDLQDPNNRRNIVCDERLRALFGVDTINMFQ 205
           L P+L   +G+    R  +++ LW YI+   LQDP+ R  ++CD+ L+ +F    +   +
Sbjct: 14  LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSE 73

Query: 206 MNKALSKHIWP 216
           + + L   + P
Sbjct: 74  IPQRLHALLMP 84


  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
   0.316    0.133    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,943,614
Number of Sequences: 62578
Number of extensions: 247573
Number of successful extensions: 590
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 585
Number of HSP's gapped (non-prelim): 7
length of query: 305
length of database: 14,973,337
effective HSP length: 98
effective length of query: 207
effective length of database: 8,840,693
effective search space: 1830023451
effective search space used: 1830023451
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: 51 (24.3 bits)