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= psy5196
         (252 letters)

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

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



>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
          Length = 861

 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 67/215 (31%), Positives = 114/215 (53%), Gaps = 15/215 (6%)

Query: 34  DGGTLGRRTQVDTNHFAITFKNPNLVIFHYDVAIDPDK-PVRYMRPVMQKVAREY----F 88
           D GT GR  ++  N F +    P + I+HY++ I P+K P R  R +++ + + +    F
Sbjct: 32  DFGTSGRTIKLQANFFEMDI--PKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQIF 89

Query: 89  PNSPCGYDGKKNLFSKGTLPFGT-AMNCTVSIFDEERMKDKEYKVEIKKAQEISFASIVE 147
            +    +DG+KNL++   LP G   +   V++  E   KD+ +KV IK    +S  ++ +
Sbjct: 90  GDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPGEG--KDRIFKVSIKWVSCVSLQALHD 147

Query: 148 FMRTGV-NRPQIAIQALDVVLREPCSLNANFVRVGRSYFSPPDPNRLVDLGDGLHLWNGF 206
            +   + + P   IQALDVV+R   S+   +  VGRS+F+  +      LG G  +W GF
Sbjct: 148 ALSGRLPSVPFETIQALDVVMRHLPSMR--YTPVGRSFFTASEGCS-NPLGGGREVWFGF 204

Query: 207 YQSAGIG-WRPYLNVDVAHKGFPEEKSVIKVIDEI 240
           +QS     W+  LN+DV+   F + + VI+ + E+
Sbjct: 205 HQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEV 239


>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
 pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
          Length = 859

 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 67/215 (31%), Positives = 114/215 (53%), Gaps = 15/215 (6%)

Query: 34  DGGTLGRRTQVDTNHFAITFKNPNLVIFHYDVAIDPDK-PVRYMRPVMQKVAREY----F 88
           D GT GR  ++  N F +    P + I+HY++ I P+K P R  R +++ + + +    F
Sbjct: 30  DFGTSGRTIKLQANFFEMDI--PKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQIF 87

Query: 89  PNSPCGYDGKKNLFSKGTLPFGT-AMNCTVSIFDEERMKDKEYKVEIKKAQEISFASIVE 147
            +    +DG+KNL++   LP G   +   V++  E   KD+ +KV IK    +S  ++ +
Sbjct: 88  GDRKPVFDGRKNLYTAMPLPIGRDKVELEVTLPGEG--KDRIFKVSIKWVSCVSLQALHD 145

Query: 148 FMRTGV-NRPQIAIQALDVVLREPCSLNANFVRVGRSYFSPPDPNRLVDLGDGLHLWNGF 206
            +   + + P   IQALDVV+R   S+   +  VGRS+F+  +      LG G  +W GF
Sbjct: 146 ALSGRLPSVPFETIQALDVVMRHLPSMR--YTPVGRSFFTASEGCS-NPLGGGREVWFGF 202

Query: 207 YQSAGIG-WRPYLNVDVAHKGFPEEKSVIKVIDEI 240
           +QS     W+  LN+DV+   F + + VI+ + E+
Sbjct: 203 HQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEV 237


>pdb|1EDY|A Chain A, Crystal Structure Of Rat Alpha 1-Macroglobulin Receptor
           Binding Domain
 pdb|1EDY|B Chain B, Crystal Structure Of Rat Alpha 1-Macroglobulin Receptor
           Binding Domain
          Length = 134

 Score = 28.5 bits (62), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 15/48 (31%), Positives = 25/48 (52%)

Query: 40  RRTQVDTNHFAITFKNPNLVIFHYDVAIDPDKPVRYMRPVMQKVAREY 87
           +RT+V+TNH  I  +        +  A++ D PV+ ++P   KV   Y
Sbjct: 69  QRTEVNTNHVLIYIEKLTNQTMGFSFAVEQDIPVKNLKPAPVKVYDYY 116


>pdb|1K3V|A Chain A, Porcine Parvovirus Capsid
          Length = 579

 Score = 27.3 bits (59), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 5/51 (9%)

Query: 88  FPNSPCGYDGKKNLFSKGTL-PFG--TAMNCTVSIFDEERMKDKEYKVEIK 135
            P+ P G  GK N+    TL  +G  TA+N T  +F   ++ DKE   ++K
Sbjct: 427 LPSDPIG--GKSNMHFMNTLNTYGPLTALNNTAPVFPNGQIWDKELDTDLK 475


  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    0.140    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,535,395
Number of Sequences: 62578
Number of extensions: 321596
Number of successful extensions: 584
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: 577
Number of HSP's gapped (non-prelim): 5
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
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: 50 (23.9 bits)