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= psy5046
         (94 letters)

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

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



>pdb|2QMQ|A Chain A, Crystal Structure Of A N-Myc Downstream Regulated 2
           Protein (Ndrg2, Syld, Ndr2, Ai182517, Au040374) From Mus
           Musculus At 1.70 A Resolution
          Length = 286

 Score = 47.4 bits (111), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/74 (37%), Positives = 37/74 (50%), Gaps = 5/74 (6%)

Query: 5   LVDGRRSYFEQCVNPINLALFIDAYIRRTDLNISRDLENRTCTQTLGMPVMNITGAFSPH 64
           L+   R   +   N  N+ L+ ++Y  R DLN  R  E      TL  PVM + G  +PH
Sbjct: 186 LIQKYRGIIQHAPNLENIELYWNSYNNRRDLNFERGGET-----TLKCPVMLVVGDQAPH 240

Query: 65  VDDTVILNSRLDPT 78
            D  V  NS+LDPT
Sbjct: 241 EDAVVECNSKLDPT 254


>pdb|2XMR|A Chain A, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
 pdb|2XMR|B Chain B, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
 pdb|2XMR|C Chain C, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
          Length = 281

 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 37/74 (50%), Gaps = 5/74 (6%)

Query: 5   LVDGRRSYFEQCVNPINLALFIDAYIRRTDLNISRDLENRTCTQTLGMPVMNITGAFSPH 64
           L+   R+      N  N+ L+ ++Y  R DLN  R  +      TL  PVM + G  +PH
Sbjct: 176 LIQKYRNIITHAPNLDNIELYWNSYNNRRDLNFERGGD-----ITLRCPVMLVVGDQAPH 230

Query: 65  VDDTVILNSRLDPT 78
            D  V  NS+LDPT
Sbjct: 231 EDAVVECNSKLDPT 244


>pdb|2XMS|A Chain A, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
          Length = 281

 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 37/74 (50%), Gaps = 5/74 (6%)

Query: 5   LVDGRRSYFEQCVNPINLALFIDAYIRRTDLNISRDLENRTCTQTLGMPVMNITGAFSPH 64
           L+   R+      N  N+ L+ ++Y  R DLN  R  +      TL  PVM + G  +PH
Sbjct: 176 LIQKYRNIITHAPNLDNIELYWNSYNNRRDLNFERGGD-----ITLRCPVMLVVGDQAPH 230

Query: 65  VDDTVILNSRLDPT 78
            D  V  NS+LDPT
Sbjct: 231 EDAVVECNSKLDPT 244


>pdb|2XMQ|A Chain A, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
 pdb|2XMQ|B Chain B, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
 pdb|2XMQ|C Chain C, Crystal Structure Of Human Ndrg2 Protein Provides Insight
           Into Its Role As A Tumor Suppressor
          Length = 281

 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 5/74 (6%)

Query: 5   LVDGRRSYFEQCVNPINLALFIDAYIRRTDLNISRDLENRTCTQTLGMPVMNITGAFSPH 64
           L+   R+      N  N+  + ++Y  R DLN  R  +      TL  PVM + G  +PH
Sbjct: 176 LIQKYRNIITHAPNLDNIENYWNSYNNRRDLNFERGGD-----ITLRCPVMLVVGDQAPH 230

Query: 65  VDDTVILNSRLDPT 78
            D  V  NS+LDPT
Sbjct: 231 EDAVVECNSKLDPT 244


  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
   0.324    0.140    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,245,727
Number of Sequences: 62578
Number of extensions: 66695
Number of successful extensions: 232
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 228
Number of HSP's gapped (non-prelim): 4
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 45 (21.9 bits)