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= 033520
         (117 letters)

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

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



>pdb|1XJV|A Chain A, Crystal Structure Of Human Pot1 Bound To Telomeric Single-
           Stranded Dna (Ttagggttag)
          Length = 294

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 17/31 (54%)

Query: 57  KREPRGIMKPRRVSPEMEAFVGAPEIPRTQA 87
           K+E +GI      S   E  +GAP IPRT +
Sbjct: 85  KKETQGITSSGFASLTFEGTLGAPIIPRTSS 115


>pdb|3KJO|A Chain A, Crystal Structure Of Hpot1v2-Dtrud(Agggttag)
 pdb|3KJP|A Chain A, Crystal Structure Of Hpot1v2-Ggttagggttag
          Length = 299

 Score = 26.9 bits (58), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 17/31 (54%)

Query: 57  KREPRGIMKPRRVSPEMEAFVGAPEIPRTQA 87
           K+E +GI      S   E  +GAP IPRT +
Sbjct: 90  KKETQGITSSGFASLTFEGTLGAPIIPRTSS 120


>pdb|2OKV|A Chain A, C-Myc Dna Unwinding Element Binding Protein
 pdb|2OKV|B Chain B, C-Myc Dna Unwinding Element Binding Protein
 pdb|2OKV|C Chain C, C-Myc Dna Unwinding Element Binding Protein
 pdb|2OKV|D Chain D, C-Myc Dna Unwinding Element Binding Protein
          Length = 209

 Score = 26.6 bits (57), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 20/39 (51%)

Query: 27  SGKPGQFSPVHLRTVRTVTLATASPKPVTGKREPRGIMK 65
            GK G +  VH++    VT+   SP P T   +P+ + K
Sbjct: 124 DGKFGAYMQVHIQNDGPVTIELESPAPGTATSDPKQLSK 162


>pdb|2XYB|A Chain A, Crystal Structure Of A Fully Functional Laccase From The
           Ligninolytic Fungus Pycnoporus Cinnabarinus
          Length = 497

 Score = 26.2 bits (56), Expect = 5.4,   Method: Composition-based stats.
 Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 6/44 (13%)

Query: 28  GKPGQFSPVHLRTVRT-----VTLATASPKPVTGKREPRGIMKP 66
           G P +  P  ++T  T     V L   SP PV G  EP G+ KP
Sbjct: 283 GAP-EIEPTSVQTTPTKPLNEVDLHPLSPMPVPGSPEPGGVDKP 325


>pdb|3DEE|A Chain A, Crystal Structure Of A Putative Regulatory Protein
           Involved In Transcription (Ngo1945) From Neisseria
           Gonorrhoeae Fa 1090 At 2.25 A Resolution
          Length = 249

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 9/17 (52%), Positives = 10/17 (58%)

Query: 101 QWKTIVFGKWECWIWIR 117
            WK I+ GKW  WI  R
Sbjct: 208 NWKNILLGKWSGWIEQR 224


>pdb|1WF3|A Chain A, Crystal Structure Of Gtp-Binding Protein Tt1341 From
          Thermus Thermophilus Hb8
          Length = 301

 Score = 25.4 bits (54), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 13 LSPETASSFLKPSSSGKPGQFSPVHLRTVRTVTLATASPKPVTGKREPRGIM 64
          ++ +T S F+  +  GKP       L  +  V +A  SP+P T ++  RGI+
Sbjct: 1  MAEKTYSGFV--AIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGIL 50


  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
   0.320    0.132    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,677,715
Number of Sequences: 62578
Number of extensions: 136265
Number of successful extensions: 295
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 6
length of query: 117
length of database: 14,973,337
effective HSP length: 80
effective length of query: 37
effective length of database: 9,967,097
effective search space: 368782589
effective search space used: 368782589
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: 45 (21.9 bits)