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= psy8289
         (91 letters)

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

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



>pdb|2APS|A Chain A, CuZN SUPEROXIDE DISMUTASE FROM ACTINOBACILLUS
           Pleuropneumoniae
 pdb|2APS|B Chain B, CuZN SUPEROXIDE DISMUTASE FROM ACTINOBACILLUS
           Pleuropneumoniae
          Length = 162

 Score = 26.2 bits (56), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 16/74 (21%)

Query: 14  LARIWLAAHWDKKLTKAH---------------VFETNIEKSVDGILQPKFNQVTE-RLE 57
           +A +    HWD K TK H               +F  +   + + +L P+  ++ E +  
Sbjct: 72  VAGLGAGGHWDPKETKQHGYPWSDNAHLGDLPALFVEHDGSATNPVLAPRLKKLDEVKGH 131

Query: 58  SRKVCPGGDNFEKH 71
           S  +  GGDN   H
Sbjct: 132 SLMIHEGGDNHSDH 145


>pdb|2WMM|A Chain A, Crystal Structure Of The Hinge Domain Of Mukb
 pdb|2WMM|B Chain B, Crystal Structure Of The Hinge Domain Of Mukb
          Length = 162

 Score = 26.2 bits (56), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 17/40 (42%)

Query: 24 DKKLTKAHVFETNIEKSVDGILQPKFNQVTERLESRKVCP 63
          D  L  A  F      S   I+ P  +QVTE LE    CP
Sbjct: 50 DVSLEDAPYFSALYGPSRHAIVVPDLSQVTEHLEGLTDCP 89


>pdb|1IBJ|A Chain A, Crystal Structure Of Cystathionine Beta-Lyase From
          Arabidopsis Thaliana
 pdb|1IBJ|C Chain C, Crystal Structure Of Cystathionine Beta-Lyase From
          Arabidopsis Thaliana
          Length = 464

 Score = 25.8 bits (55), Expect = 6.9,   Method: Composition-based stats.
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 23 WDKK-LTKAHVFETN--IEKSVDGILQPKFNQVTERLESRKV 61
          W+KK ++  + F+ N  +EKSVDG      N  T+ L +  +
Sbjct: 40 WEKKQISNRNSFKLNCVMEKSVDGQTHSTVNNTTDSLNTMNI 81


>pdb|3IBP|A Chain A, The Crystal Structure Of The Dimerization Domain Of
           Escherichia Coli Structural Maintenance Of Chromosomes
           Protein Mukb
          Length = 302

 Score = 25.4 bits (54), Expect = 7.4,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 17/40 (42%)

Query: 24  DKKLTKAHVFETNIEKSVDGILQPKFNQVTERLESRKVCP 63
           D  L  A  F      S   I+ P  +QVTE LE    CP
Sbjct: 131 DVSLEDAPYFSALYGPSRHAIVVPDLSQVTEHLEGLTDCP 170


>pdb|3BPN|C Chain C, Crystal Structure Of The Il4-Il4r-Il13ra Ternary Complex
 pdb|3BPO|C Chain C, Crystal Structure Of The Il13-Il4r-Il13ra Ternary Complex
          Length = 314

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 4/44 (9%)

Query: 33  FETNIEKS----VDGILQPKFNQVTERLESRKVCPGGDNFEKHW 72
           FE N+E +    V G+L    N V  R+++ K+C   D    +W
Sbjct: 259 FERNVENTSCFMVPGVLPDTLNTVRIRVKTNKLCYEDDKLWSNW 302


>pdb|4HWB|A Chain A, Crystal Structure Of Ectodomain 3 Of The Il-13 Receptor
           Alpha 1 In Complex With A Human Neutralizing Monoclonal
           Antibody Fragment
          Length = 122

 Score = 25.4 bits (54), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 4/44 (9%)

Query: 33  FETNIEKS----VDGILQPKFNQVTERLESRKVCPGGDNFEKHW 72
           FE N+E +    V G+L    N V  R+++ K+C   D    +W
Sbjct: 65  FERNVENTSCFMVPGVLPDTLNTVRIRVKTNKLCYEDDKLWSNW 108


  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    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,116,165
Number of Sequences: 62578
Number of extensions: 109711
Number of successful extensions: 174
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: 172
Number of HSP's gapped (non-prelim): 6
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
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: 45 (21.9 bits)