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= 030537
         (175 letters)

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

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



>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus
           Star-Gsg Quaking Protein
          Length = 140

 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 59/123 (47%), Positives = 78/123 (63%), Gaps = 5/123 (4%)

Query: 29  RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKE----GKIR 84
           +L VPV +YP+ FNFVGRILGPRG + K++EA T C + +RG+ S++D  KE    GK  
Sbjct: 5   KLYVPVKEYPD-FNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPN 63

Query: 85  YEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGT 144
           +EHLNE LHVL   E  ++    +L  AV  ++ LL P  E  D  KK +L E A LNGT
Sbjct: 64  WEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGT 123

Query: 145 LRE 147
            R+
Sbjct: 124 YRD 126


>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
           Rna By Splicing Factor 1
          Length = 131

 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 51/123 (41%), Positives = 71/123 (57%), Gaps = 13/123 (10%)

Query: 32  VPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHL--- 88
           +P D+YP + NFVG ++GPRGN+LK +E      + IRG+ SVK+  K G+   + L   
Sbjct: 13  IPQDEYP-EINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEG-KVGRKDGQMLPGE 70

Query: 89  NEPLHVLGEAEFPEDIINSRLDHAVAILENLLK---PVDESLDHYKKQQLREFATLNGTL 145
           +EPLH L  A   E++       AV  + N+LK      E  +  +K QLRE A LNGTL
Sbjct: 71  DEPLHALVTANTMENV-----KKAVEQIRNILKQGIETPEDQNDLRKMQLRELARLNGTL 125

Query: 146 REE 148
           RE+
Sbjct: 126 RED 128


>pdb|2YQR|A Chain A, Solution Structure Of The Kh Domain In Kiaa0907 Protein
          Length = 119

 Score = 29.6 bits (65), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 24/105 (22%), Positives = 46/105 (43%), Gaps = 9/105 (8%)

Query: 29  RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHL 88
           +L V ++     FN   ++ GP  + L+ ++  T   VF+RG+ S       G+  +   
Sbjct: 15  KLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPASGREAF--- 71

Query: 89  NEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQ 133
            EP+++      PE +  ++      + ENLL+ V      +  Q
Sbjct: 72  -EPMYIYISHPKPEGLAAAK-----KLCENLLQTVHAEYSRFVNQ 110


>pdb|2Z0S|A Chain A, Crystal Structure Of Putative Exosome Complex Rna-Binding
           Protein
          Length = 235

 Score = 27.3 bits (59), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 9/53 (16%)

Query: 44  VGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLG 96
           V R++G + + LK +E  TEC +F+          + G+I  E  NE L  + 
Sbjct: 159 VPRVIGRKMSMLKTLEEKTECKIFV---------ARNGRIHLECPNEDLEAIA 202


>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring
          Finger And Kh Domain Containing Protein 1
          Length = 83

 Score = 26.9 bits (58), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 9/31 (29%), Positives = 19/31 (61%)

Query: 41 FNFVGRILGPRGNSLKRVEAMTECTVFIRGQ 71
          +  VG ++GP+G ++KR++  T   +   G+
Sbjct: 18 YRVVGLVVGPKGATIKRIQQRTHTYIVTPGR 48


>pdb|1L2L|A Chain A, Crystal Structure Of Adp-Dependent Glucokinase From A
           Pyrococcus Horikoshii
          Length = 457

 Score = 26.6 bits (57), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 14/39 (35%), Positives = 22/39 (56%)

Query: 88  LNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDES 126
           L   + V+GE E  E II+      +A++E LLK + E+
Sbjct: 299 LASVVSVMGEKELAERIISKDPADPIAVIEGLLKLIKET 337


>pdb|1ZBS|A Chain A, Crystal Structure Of The Putative N-acetylglucosamine
           Kinase (pg1100) From Porphyromonas Gingivalis, Northeast
           Structural Genomics Target Pgr18
          Length = 291

 Score = 26.2 bits (56), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)

Query: 71  QSSVKDSLKEGKIRYEHLNEPLHVLGEAEF-PEDIINSRLDHAVAILENLLKPVDESLDH 129
           Q+S  D L    +RY   + PLH +G   F   ++++S +      L ++L+   E L  
Sbjct: 217 QNSFDDFLVRNVLRYNRPDLPLHFIGSVAFHYREVLSSVIKKRGLTLGSVLQSPXEGLIQ 276

Query: 130 Y 130
           Y
Sbjct: 277 Y 277


  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
   0.319    0.137    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,846,484
Number of Sequences: 62578
Number of extensions: 186152
Number of successful extensions: 575
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 568
Number of HSP's gapped (non-prelim): 8
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)