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= 022690
         (293 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 =  125 bits (314), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 62/122 (50%), Positives = 86/122 (70%)

Query: 144 RLDVPVDKYPNFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDSIKEEKLKDKPGY 203
           +L VPV +YP+FNFVGRILGPRG + K++EA T C++ +RG+GS++D  KEE+ + KP +
Sbjct: 5   KLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNW 64

Query: 204 EHLNEPLHVLVEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLRELAMLNGTL 263
           EHLNE LHVL+  E  ++    +L  AV  ++ LL P  E  D  KK +L ELA+LNGT 
Sbjct: 65  EHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGTY 124

Query: 264 RE 265
           R+
Sbjct: 125 RD 126


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

 Score = 88.6 bits (218), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 57/138 (41%), Positives = 78/138 (56%), Gaps = 13/138 (9%)

Query: 132 GIPTTPVVKRVIRLDVPVDKYPNFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDS 191
           G   T V  +V+   +P D+YP  NFVG ++GPRGN+LK +E     ++ IRG+GSVK+ 
Sbjct: 1   GAMATRVSDKVM---IPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEG 57

Query: 192 IKEEKLKDKPGYEHLNEPLHVLVEAEFPEDIINSRLDHAVAILENLLK---PVDESLDHY 248
             +   KD       +EPLH LV A   E++       AV  + N+LK      E  +  
Sbjct: 58  --KVGRKDGQMLPGEDEPLHALVTANTMENV-----KKAVEQIRNILKQGIETPEDQNDL 110

Query: 249 KKQQLRELAMLNGTLREE 266
           +K QLRELA LNGTLRE+
Sbjct: 111 RKMQLRELARLNGTLRED 128


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

 Score = 35.8 bits (81), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 25/99 (25%), Positives = 46/99 (46%), Gaps = 13/99 (13%)

Query: 153 PNFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDSIKEEKLKDKPGYEHLNEPLHV 212
           P FN   ++ GP  + L+ ++  T  +VF+RG+GS         ++   G E   EP+++
Sbjct: 25  PTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGS-------GCIEPASGREAF-EPMYI 76

Query: 213 LVEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQ 251
            +    PE +  ++      + ENLL+ V      +  Q
Sbjct: 77  YISHPKPEGLAAAK-----KLCENLLQTVHAEYSRFVNQ 110


>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
          10- Formyltetrahydrofolate Dehydrogenase
          Length = 310

 Score = 30.8 bits (68), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 32 RERYLAELLAERQKLGPFVQVLPLCSRLLSQEI 64
          R + L E++A+ Q LG  + VLP CS+ +  E+
Sbjct: 62 RGQALPEVVAKYQALGAELNVLPFCSQFIPMEV 94


>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
           Domain
          Length = 73

 Score = 30.4 bits (67), Expect = 1.2,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 6/59 (10%)

Query: 139 VKRVIRLDVPVDKYPNFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDSIKEEKL 197
           +K V+ + VP       N VG ILG  G +L   + +T CR+ I  +G      +  K+
Sbjct: 1   MKDVVEIAVPE------NLVGAILGKGGKTLVEYQELTGCRIQISKKGEFLPGTRNRKV 53


>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
           Formyltetrahydrofolate 2 Dehydrogenase
 pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
           Formyltetrahydropterin
          Length = 329

 Score = 28.9 bits (63), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 32  RERYLAELLAERQKLGPFVQVLPLCSRLLSQEI 64
           + + L +++A+ Q LG  + VLP CS+ +  EI
Sbjct: 84  KGQALPDVVAKYQALGAELNVLPFCSQFIPMEI 116


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

 Score = 28.5 bits (62), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 155 FNFVGRILGPRGNSLKRVEAMTECRVFIRGR 185
           +  VG ++GP+G ++KR++  T   +   GR
Sbjct: 18  YRVVGLVVGPKGATIKRIQQRTHTYIVTPGR 48


  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
   0.318    0.138    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,858,787
Number of Sequences: 62578
Number of extensions: 364677
Number of successful extensions: 854
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 844
Number of HSP's gapped (non-prelim): 10
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)