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= 025808
         (247 letters)

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

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



>pdb|1N10|A Chain A, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
           Allergen
 pdb|1N10|B Chain B, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
           Allergen
          Length = 241

 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 69/224 (30%), Positives = 118/224 (52%), Gaps = 12/224 (5%)

Query: 28  SRATYYGSPDSLGTPT--GACGFGEYGRT-VNDANVAGVSRLWKNGTGCGACYQVRCKVP 84
           +++T+YG P   G     GACG+ +  +   +     G + ++K+G GCG+C++++C  P
Sbjct: 22  AKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTPIFKSGRGCGSCFEIKCTKP 81

Query: 85  QLCXXXXXXXXXXXXXXX--XKTDFILSPRAYGRMALPDKSAELYSYGVVNVEFRRVPCW 142
           + C                     F LS  A+G MA      +L S G + ++FRRV C 
Sbjct: 82  EACSGEPVVVHITDDNEEPIAPYHFDLSGHAFGAMAKKGDEQKLRSAGELELQFRRVKCK 141

Query: 143 Y-KGYNLQFKVHENSRYPHYLAIAILYVAGQNDVLAVEIWQEDYQEWVAMRRAFGAVFDI 201
           Y +G  + F V + S  P+YLA+ + YV G  DV+AV+I ++   +W+ ++ ++GA++ I
Sbjct: 142 YPEGTKVTFHVEKGSN-PNYLALLVKYVNGDGDVVAVDIKEKGKDKWIELKESWGAIWRI 200

Query: 202 SSPPE--GAISLRFQVSGSAGLTWVVANNAIPSDWKAGVAYESE 243
            +P +  G  ++R+   G    T   A + IP  WKA  +YES+
Sbjct: 201 DTPDKLTGPFTVRYTTEGG---TKTEAEDVIPEGWKADTSYESK 241


>pdb|2HCZ|X Chain X, Crystal Structure Of Expb1 (Zea M 1), A Beta-Expansin And
           Group-1 Pollen Allergen From Maize
          Length = 245

 Score =  111 bits (278), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 73/231 (31%), Positives = 117/231 (50%), Gaps = 20/231 (8%)

Query: 28  SRATYYGSPDSLGTPT--GACGFGEYGRTVNDANVAGVSR-----LWKNGTGCGACYQVR 80
           +RAT+YG P+  G P   GACG     + VN    +G++      ++K+G GCG+CY+VR
Sbjct: 22  ARATWYGQPNGAGAPDNGGACGI----KNVNLPPYSGMTACGNVPIFKDGKGCGSCYEVR 77

Query: 81  CKVPQLCXXXXXXX--XXXXXXXXXKTDFILSPRAYGRMALPDKSAELYSYGVVNVEFRR 138
           CK    C                     F LS +A+G +A P  + ++   G+++VEFRR
Sbjct: 78  CKEKPECSGNPVTVYITDMNYEPIAPYHFDLSGKAFGSLAKPGLNDKIRHCGIMDVEFRR 137

Query: 139 VPCWYK-GYNLQFKVHENSRYPHYLAIAILYVAGQNDVLAVEIWQEDYQEWVAMRRAFGA 197
           V C Y  G  + F + +    P+YLA+ + YVA   D++ +EI  +   EW  M+ ++GA
Sbjct: 138 VRCKYPAGQKIVFHIEKGCN-PNYLAVLVKYVADDGDIVLMEIQDKLSAEWKPMKLSWGA 196

Query: 198 V--FDISSPPEGAISLRFQVSGSAGLTWVVANNAIPSDWKAGVAYESEIQL 246
           +   D +   +G  S+R     S     V+A + IP++W+    Y S +Q 
Sbjct: 197 IWRMDTAKALKGPFSIRLT---SESGKKVIAKDVIPANWRPDAVYTSNVQF 244


>pdb|1BMW|A Chain A, A Fibronectin Type Iii Fold In Plant Allergens: The
           Solution Structure Of Phl Pii From Timothy Grass Pollen,
           Nmr, 38 Structures
 pdb|1WHO|A Chain A, Allergen Phl P 2
 pdb|1WHP|A Chain A, Allergen Phl P 2
 pdb|2VXQ|A Chain A, Crystal Structure Of The Major Grass Pollen Allergen Phl P
           2 In Complex With Its Specific Ige-Fab
          Length = 96

 Score = 38.1 bits (87), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 30/100 (30%), Positives = 46/100 (46%), Gaps = 10/100 (10%)

Query: 147 NLQFKVHENSRYPHYLAIAILYVAGQNDVLA-VEIWQEDYQEWVAMRRAFGAV--FDISS 203
            + F V + S   H LA+ + Y   + D +A VE+ +    EWVAM +  G V  FD   
Sbjct: 3   KVTFTVEKGSNEKH-LAVLVKY---EGDTMAEVELREHGSDEWVAMTKGEGGVWTFDSEE 58

Query: 204 PPEGAISLRFQVSGSAGLTWVVANNAIPSDWKAGVAYESE 243
           P +G  + RF      G+  V  ++ +P  +  G  Y  E
Sbjct: 59  PLQGPFNFRFLT--EKGMKNVF-DDVVPEKYTIGATYAPE 95


>pdb|4HPP|A Chain A, Crystal Structure Of Novel Glutamine Synthase Homolog
          Length = 443

 Score = 28.1 bits (61), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 34/60 (56%), Gaps = 4/60 (6%)

Query: 113 AYGRMALPDKSAELYSYGVVNVEFRRVPCWYKGYNLQFKVHENSRYPHYLAIAILYVAGQ 172
           AY  + L ++ A L    VV+V  + +    K YNL+F+  + +  PH LA+A + +AG+
Sbjct: 299 AYACLGLRNREAALRICPVVSVGGKPL---GKQYNLEFRPMDATTCPH-LAMAAVLIAGR 354


  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
   0.321    0.136    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,553,963
Number of Sequences: 62578
Number of extensions: 295356
Number of successful extensions: 515
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 504
Number of HSP's gapped (non-prelim): 12
length of query: 247
length of database: 14,973,337
effective HSP length: 96
effective length of query: 151
effective length of database: 8,965,849
effective search space: 1353843199
effective search space used: 1353843199
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)