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= 017913
         (364 letters)

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

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



>pdb|2YUH|A Chain A, Solution Structure Of The C-Terminal Region In Human
           Tubulin Folding Cofactor C
          Length = 179

 Score =  136 bits (343), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 65/157 (41%), Positives = 96/157 (61%), Gaps = 1/157 (0%)

Query: 193 GFRDKQSQVLVKNFKGSEIGEFTLSGLDSCEVKLVGSVNALFINQLKNCKVYVGPVMGSI 252
           GF + +SQVL K        +  L+ L +C V+L G+ N L + +  +CK+  GPV  S+
Sbjct: 12  GFSNLESQVLEKRASELHQRDVLLTELSNCTVRLYGNPNTLRLTKAHSCKLLCGPVSTSV 71

Query: 253 LIEEVENCLLVLVSHQIRIHFAKRSDFYLRARSRPIIEDSNEVRFAPYCLKYKGIEADLE 312
            +E+  +C+L +   Q+RIH  K +  +L+  SR I+ED + ++FAPY   Y  I+ D E
Sbjct: 72  FLEDCSDCVLAVACQQLRIHSTKDTRIFLQVTSRAIVEDCSGIQFAPYTWSYPEIDKDFE 131

Query: 313 VAGLNEETGNWTNVDDFKWL-RAVQSPNWSVLPEEER 348
            +GL+    NW +VDDF WL R + SPNWS+LPEEER
Sbjct: 132 SSGLDRSKNNWNDVDDFNWLARDMASPNWSILPEEER 168


>pdb|3BH6|B Chain B, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gppnhp
 pdb|3BH7|B Chain B, Crystal Structure Of The Rp2-Arl3 Complex Bound To
           Gdp-Alf4
          Length = 352

 Score = 75.9 bits (185), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 67/134 (50%), Gaps = 2/134 (1%)

Query: 213 EFTLSGLDSCEVKLVGSVNALFINQLKNCKVYVGPVMGSILIEEVENCLLVLVSHQIRIH 272
           +F +   ++C + +      + I+   NC +++GPV GS+      +C   L   Q R+ 
Sbjct: 63  QFLIQDCENCNIYIFDHSATVTIDDCTNCIIFLGPVKGSVFFRNCRDCKCTLACQQFRVR 122

Query: 273 FAKRSDFYLRARSRPIIEDSNEVRFAPYCLKYKGIEADLEVAGLNEETGNWTNVDDFKWL 332
             ++ + +L   ++PIIE S+ ++F  +   Y  +    + AGL+     W+N+ DF  +
Sbjct: 123 DCRKLEVFLCCATQPIIESSSNIKFGCFQWYYPELAFQFKDAGLSIFNNTWSNIHDFTPV 182

Query: 333 RAVQSPNWSVLPEE 346
                 NWS+LPE+
Sbjct: 183 SG--ELNWSLLPED 194


>pdb|2BX6|A Chain A, Crystal Structure Of The Human Retinitis Pigmentosa
           Protein 2 (Rp2)
          Length = 350

 Score = 75.9 bits (185), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 67/134 (50%), Gaps = 2/134 (1%)

Query: 213 EFTLSGLDSCEVKLVGSVNALFINQLKNCKVYVGPVMGSILIEEVENCLLVLVSHQIRIH 272
           +F +   ++C + +      + I+   NC +++GPV GS+      +C   L   Q R+ 
Sbjct: 61  QFLIQDCENCNIYIFDHSATVTIDDCTNCIIFLGPVKGSVFFRNCRDCKCTLACQQFRVR 120

Query: 273 FAKRSDFYLRARSRPIIEDSNEVRFAPYCLKYKGIEADLEVAGLNEETGNWTNVDDFKWL 332
             ++ + +L   ++PIIE S+ ++F  +   Y  +    + AGL+     W+N+ DF  +
Sbjct: 121 DCRKLEVFLCCATQPIIESSSNIKFGCFQWYYPELAFQFKDAGLSIFNNTWSNIHDFTPV 180

Query: 333 RAVQSPNWSVLPEE 346
                 NWS+LPE+
Sbjct: 181 SG--ELNWSLLPED 192


>pdb|4DZP|A Chain A, Crystal Structure Of The Terminase Small Subunit Gp1
          With R48a Mutation Of The Bacterial Virus Sf6
 pdb|4DZP|B Chain B, Crystal Structure Of The Terminase Small Subunit Gp1
          With R48a Mutation Of The Bacterial Virus Sf6
          Length = 140

 Score = 28.9 bits (63), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 11/34 (32%), Positives = 20/34 (58%)

Query: 63 RKPDSPDSSSTSAFLSRFNDFKNSITTQIESAAD 96
          ++P  PD S+  A+L++  DF++      E+ AD
Sbjct: 36 KRPGMPDKSTVFAWLAKHEDFRDKYAKATEARAD 69


>pdb|2L3L|A Chain A, The Solution Structure Of The N-Terminal Domain Of Human
           Tubulin Binding Cofactor C Reveals A Platform For The
           Interaction With Ab- Tubulin
          Length = 111

 Score = 28.9 bits (63), Expect = 5.2,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 46/89 (51%), Gaps = 4/89 (4%)

Query: 39  ETLQKKHQSMIHRLAVRHQTRLETRKPDSPDSSSTSAFLSRFNDFKNSITTQIESAADPS 98
           E LQ++ Q    +L V  + R + R+    +  ++  F++ F   + ++   +E A    
Sbjct: 3   ERLQRREQE--RQLEV--ERRKQKRQNQEVEKENSHFFVATFARERAAVEELLERAESVE 58

Query: 99  CLTDISSSISDLEKLVAENSYCLPSYEIR 127
            L + +S +  L+KL+ ++ + L +Y++R
Sbjct: 59  RLEEAASRLQGLQKLINDSVFFLAAYDLR 87


  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
   0.316    0.132    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,772,320
Number of Sequences: 62578
Number of extensions: 364415
Number of successful extensions: 790
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 782
Number of HSP's gapped (non-prelim): 5
length of query: 364
length of database: 14,973,337
effective HSP length: 100
effective length of query: 264
effective length of database: 8,715,537
effective search space: 2300901768
effective search space used: 2300901768
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)