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= 005739
         (680 letters)

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

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



>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
          Length = 174

 Score = 38.5 bits (88), Expect = 0.014,   Method: Composition-based stats.
 Identities = 26/98 (26%), Positives = 49/98 (50%), Gaps = 7/98 (7%)

Query: 29  FYQSFTYDGVEYTLYDCVYLY-KEGDAEPHVGKLIKIWENADKAKKVKLLWFFRPSDISN 87
           + Q  ++    Y + D VY+   E + +PH+  + ++WE++   K +   WF+RP++  +
Sbjct: 16  YSQDCSFKNSMYHVGDYVYVEPAEANLQPHIVCIERLWEDSAGEKWLYGCWFYRPNETFH 75

Query: 88  FLGNVQTLENELILACGEGVGLTNINPLEAIAGKCNVV 125
            L   + LE E+  +        N  P+  I GKC V+
Sbjct: 76  -LATRKFLEKEVFKS-----DYYNKVPVSKILGKCVVM 107


>pdb|4FT2|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-15)k9me2 Peptide And Sah
 pdb|4FT2|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-15)k9me2 Peptide And Sah
 pdb|4FT4|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-32)k9me2 Peptide And Sah
 pdb|4FT4|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
           H3(1-32)k9me2 Peptide And Sah
          Length = 784

 Score = 35.8 bits (81), Expect = 0.076,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 30  YQSFTYDGVEYTLYDCVYLYKEGDAEP-HVGKLIKIWENADKAKKVKLLWFFRPSD 84
           Y+S   D V Y L D VY+ K G+ E  ++G++ + +E  D+       WFFR  D
Sbjct: 48  YRSAKVDNVVYCLGDDVYV-KAGENEADYIGRITEFFEGTDQCHYFTCRWFFRAED 102


>pdb|4FSX|A Chain A, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
           Complex With Sah
 pdb|4FSX|B Chain B, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
           Complex With Sah
          Length = 784

 Score = 35.8 bits (81), Expect = 0.086,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 27/55 (49%)

Query: 30  YQSFTYDGVEYTLYDCVYLYKEGDAEPHVGKLIKIWENADKAKKVKLLWFFRPSD 84
           Y+S   D V Y L D VY+    +   ++G++ + +E  D+       WFFR  D
Sbjct: 48  YRSAKVDNVVYCLGDDVYVKAGENEADYIGRITEFFEGTDQCHYFTCRWFFRAED 102


>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
           Pspc1NONO
          Length = 261

 Score = 34.3 bits (77), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 37/149 (24%), Positives = 60/149 (40%), Gaps = 14/149 (9%)

Query: 507 RIRVAHEHGTLVVLENLDPSYTSTVVEDLVWHAFKE-NCSAKMIPRVAFASPYFGQSFVI 565
           RIR A  HG  + ++NL P     V  +L+  AF +     K +  V       G+ FV 
Sbjct: 89  RIRFAT-HGAALTVKNLSP----VVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVE 143

Query: 566 FKTREVAELVVTKLEEGCLLLSNGRPLLGSIGTPCFTGKQSKFVGHLAL-DKLKFQMQRE 624
           F  +  A   + +  +G  LL+       +   P       +F     L +KL  + Q+ 
Sbjct: 144 FAAKPPARKALERCGDGAFLLT-------TTPRPVIVEPMEQFDDEDGLPEKLMQKTQQY 196

Query: 625 MREAVSTSHCSQPNSLEYDMAIEWSLLQE 653
            +E       +QP + E++ A  W  L E
Sbjct: 197 HKEREQPPRFAQPGTFEFEYASRWKALDE 225


>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
           Pspc1NONO
          Length = 261

 Score = 29.3 bits (64), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 37/148 (25%), Positives = 58/148 (39%), Gaps = 12/148 (8%)

Query: 507 RIRVAHEHGTLVVLENLDPSYTSTVVEDLVWHAFKENCSAKMIPRVAFASPYFGQSFVIF 566
           R+R A    +L V  NL P Y S  + +  +  F +   A +I  V       G+  V F
Sbjct: 89  RVRFACHSASLTV-RNL-PQYVSNELLEEAFSVFGQVERAVVI--VDDRGRPSGKGIVEF 144

Query: 567 KTREVAELVVTKLEEGCLLLSNGRPLLGSIGTPCFTGKQSKFVGHLAL-DKLKFQMQREM 625
             +  A   + +  EG  LL+       +   P       +      L +KL  + Q+  
Sbjct: 145 SGKPAARKALDRCSEGSFLLT-------TFPRPVTVEPMDQLDDEEGLPEKLVIKNQQFH 197

Query: 626 REAVSTSHCSQPNSLEYDMAIEWSLLQE 653
           +E       +QP S EY+ A+ W  L E
Sbjct: 198 KEREQPPRFAQPGSFEYEYAMRWKALIE 225


  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    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,619,057
Number of Sequences: 62578
Number of extensions: 686172
Number of successful extensions: 1351
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1345
Number of HSP's gapped (non-prelim): 13
length of query: 680
length of database: 14,973,337
effective HSP length: 105
effective length of query: 575
effective length of database: 8,402,647
effective search space: 4831522025
effective search space used: 4831522025
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)