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= 032638
         (136 letters)

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

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



>pdb|4GNI|A Chain A, Structure Of The Ssz1 Atpase Bound To Atp And Magnesium
 pdb|4GNI|B Chain B, Structure Of The Ssz1 Atpase Bound To Atp And Magnesium
          Length = 409

 Score = 26.6 bits (57), Expect = 4.1,   Method: Composition-based stats.
 Identities = 12/25 (48%), Positives = 16/25 (64%)

Query: 109 FVLKKLSEETAERARLTAKNMATRY 133
           F +K  +EE AE + LT   +ATRY
Sbjct: 110 FTIKDKAEEDAEPSTLTVSEIATRY 134


>pdb|3LCZ|A Chain A, B.Licheniformis Anti-Trap Can Assemble Into Two Types Of
           Dodecameric Particles With The Same Symmetry But
           Inverted Orientation Of Trimers
 pdb|3LCZ|B Chain B, B.Licheniformis Anti-Trap Can Assemble Into Two Types Of
           Dodecameric Particles With The Same Symmetry But
           Inverted Orientation Of Trimers
 pdb|3LCZ|C Chain C, B.Licheniformis Anti-Trap Can Assemble Into Two Types Of
           Dodecameric Particles With The Same Symmetry But
           Inverted Orientation Of Trimers
 pdb|3LCZ|D Chain D, B.Licheniformis Anti-Trap Can Assemble Into Two Types Of
           Dodecameric Particles With The Same Symmetry But
           Inverted Orientation Of Trimers
 pdb|3LD0|A Chain A, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|B Chain B, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|C Chain C, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|D Chain D, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|E Chain E, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|F Chain F, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|G Chain G, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|H Chain H, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|I Chain I, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|J Chain J, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|K Chain K, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|L Chain L, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|M Chain M, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|N Chain N, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|O Chain O, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|P Chain P, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|Q Chain Q, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|R Chain R, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|S Chain S, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|T Chain T, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|U Chain U, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|V Chain V, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|W Chain W, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|X Chain X, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|Y Chain Y, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|Z Chain Z, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|1 Chain 1, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|2 Chain 2, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|3 Chain 3, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|4 Chain 4, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|5 Chain 5, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|6 Chain 6, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|7 Chain 7, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|8 Chain 8, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|9 Chain 9, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|AA Chain a, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|BB Chain b, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|CC Chain c, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|DD Chain d, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|EE Chain e, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|FF Chain f, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|GG Chain g, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|HH Chain h, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|II Chain i, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|JJ Chain j, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|KK Chain k, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|LL Chain l, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
 pdb|3LD0|MM Chain m, Crystal Structure Of B.Licheniformis Anti-Trap Protein, An
           Antagonist Of Trap-Rna Interactions
          Length = 53

 Score = 26.6 bits (57), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 5/26 (19%)

Query: 91  TCEDCGGSG-----ICPECKGEGFVL 111
           TC +C GSG      CP+C G+G +L
Sbjct: 11  TCPNCNGSGREEPEPCPKCLGKGVIL 36


>pdb|3P11|A Chain A, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAINS I-Iii Of
           The Her3 Extracellular Region
          Length = 522

 Score = 26.2 bits (56), Expect = 5.9,   Method: Composition-based stats.
 Identities = 12/21 (57%), Positives = 15/21 (71%), Gaps = 3/21 (14%)

Query: 89  LKTCEDCGGSGICPE-CKGEG 108
           LK CE CG  G+CP+ C+G G
Sbjct: 298 LKMCEPCG--GLCPKACEGTG 316


>pdb|1M6B|A Chain A, Structure Of The Her3 (Erbb3) Extracellular Domain
 pdb|1M6B|B Chain B, Structure Of The Her3 (Erbb3) Extracellular Domain
          Length = 621

 Score = 25.8 bits (55), Expect = 8.1,   Method: Composition-based stats.
 Identities = 12/21 (57%), Positives = 15/21 (71%), Gaps = 3/21 (14%)

Query: 89  LKTCEDCGGSGICPE-CKGEG 108
           LK CE CG  G+CP+ C+G G
Sbjct: 298 LKMCEPCG--GLCPKACEGTG 316


  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
   0.314    0.131    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,753,873
Number of Sequences: 62578
Number of extensions: 76276
Number of successful extensions: 103
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 102
Number of HSP's gapped (non-prelim): 5
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 46 (22.3 bits)