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= 006853
         (628 letters)

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

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



>pdb|3LWT|X Chain X, Crystal Structure Of The Yeast Sac1: Implications For Its
           Phosphoinositide Phosphatase Function
          Length = 505

 Score =  171 bits (434), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 136/515 (26%), Positives = 231/515 (44%), Gaps = 72/515 (13%)

Query: 89  VTKCFGIVGFIKFLEPYYMLLVTGRKKIGVICGHAVYSIKKSEIIPIPHSSVLSNLAYSK 148
           V K   ++GFIK     Y ++    ++ G   GH  Y + +  I+    +S + +     
Sbjct: 53  VVKIASLMGFIKLKLNRYAIIANTVEETGRFNGHVFYRVLQHSIVSTKFNSRIDS----- 107

Query: 149 NEKRYKKLLSSVDLTKDFFFSYSYNIMNSLQKN-LCNNGTGQSQYESMFVWNHFLTRGIR 207
            E  Y KLL        F+FSY+Y++ NSLQ+N            +  F WNH+LT  +R
Sbjct: 108 EEAEYIKLLELHLKNSTFYFSYTYDLTNSLQRNEKVGPAASWKTADERFFWNHYLTEDLR 167

Query: 208 NTLKNN----QWTVALVYGFFKQENLSVAGRDFKFTLIARRSRHYAGTRYLKRGVNEKGR 263
           N    +     +   ++YG+ K  +  +        LI RRS   AGTRY +RGV++ G 
Sbjct: 168 NFAHQDPRIDSFIQPVIYGYAKTVDAVLNATPIVLGLITRRSIFRAGTRYFRRGVDKDGN 227

Query: 264 VANDVETEQIVVEDVPEGYPMQISSVVQVRGSIPLFWSQETSWMNIKPDIILSKKDKKYE 323
           V N  ETEQI++ + PE   + + S +Q RGS+P++W+ E + +  KP+++L   +   +
Sbjct: 228 VGNFNETEQILLAENPESEKIHVFSFLQTRGSVPIYWA-EINNLKYKPNLVLG--ENSLD 284

Query: 324 ATRLHFENLAKRYGNPIIVLNLIKTNEKKPRETILRAEFSNAIRFINKDLSKENRLKFLS 383
           AT+ HF+   + YG+  +V NL+    +K  E  ++  + + +  +N     + ++ ++ 
Sbjct: 285 ATKKHFDQQKELYGDNYLV-NLVN---QKGHELPVKEGYESVVHALN-----DPKIHYVY 335

Query: 384 YDLQKHSRKA-INALQILGRAGAYALSLTGIFYCQVTPKPEGLLNLSCIERSDDDYPQNL 442
           +D     RK   + +++L                                    D+ + L
Sbjct: 336 FDFHHECRKMQWHRVKLL-----------------------------------IDHLEKL 360

Query: 443 SHKNED--AETVDREVSSGSHVPSANLSIKVPILQKGVLRTNCIDCLDRTNVAQYAYGVV 500
              NED   + +D   S+G+ V   N        Q  V+RTNC+DCLDRTNV Q      
Sbjct: 361 GLSNEDFFHKVID---SNGNTVEIVN-------EQHSVVRTNCMDCLDRTNVVQSVLAQW 410

Query: 501 AXXXXXXXXXXXXSPNIGLDN-PLAKDLMGIYETMGDTLALQYGGSAAHNKIFCERRGQW 559
                        + +   DN PL      ++    D +++ Y G+ A    F  R G+ 
Sbjct: 411 VLQKEFESADVVATGSTWEDNAPLLTSYQNLWADNADAVSVAYSGTGALKTDFT-RTGKR 469

Query: 560 RAATQSQEFLRTLQRYYSNTYVDAEKQNAINVFLG 594
                  +FL +  RYY N + D  +Q++ ++FLG
Sbjct: 470 TRLGAFNDFLNSASRYYQNNWTDGPRQDSYDLFLG 504


>pdb|3RDK|A Chain A, Protein Crystal Structure Of Xylanase A1 Of Paenibacillus
           Sp. Jdr-2
 pdb|3RDK|B Chain B, Protein Crystal Structure Of Xylanase A1 Of Paenibacillus
           Sp. Jdr-2
 pdb|4E4P|A Chain A, Second Native Structure Of Xylanase A1 From Paenibacillus
           Sp. Jdr-2
 pdb|4E4P|B Chain B, Second Native Structure Of Xylanase A1 From Paenibacillus
           Sp. Jdr-2
 pdb|3RO8|A Chain A, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|B Chain B, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|C Chain C, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|D Chain D, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|E Chain E, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|F Chain F, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|G Chain G, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
 pdb|3RO8|H Chain H, Crystal Structure Of The Catalytic Domain Of Xyna1 From
           Paenibacillus Sp. Jdr-2
          Length = 341

 Score = 31.2 bits (69), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 13/65 (20%), Positives = 34/65 (52%), Gaps = 4/65 (6%)

Query: 286 ISSVVQVRGSIPLFWSQETSWMNIKPD----IILSKKDKKYEATRLHFENLAKRYGNPII 341
           ++  +++ G + ++  Q  +W+N K D     +   +D+  +  R H + + K +GN +I
Sbjct: 72  LAEGMKMHGHVLVWHQQSPAWLNTKKDDNNNTVPLGRDEALDNLRTHIQTVMKHFGNKVI 131

Query: 342 VLNLI 346
             +++
Sbjct: 132 SWDVV 136


  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
   0.320    0.136    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,642,067
Number of Sequences: 62578
Number of extensions: 771612
Number of successful extensions: 1528
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1521
Number of HSP's gapped (non-prelim): 3
length of query: 628
length of database: 14,973,337
effective HSP length: 105
effective length of query: 523
effective length of database: 8,402,647
effective search space: 4394584381
effective search space used: 4394584381
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: 54 (25.4 bits)