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= 010202
         (515 letters)

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

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



>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 34.7 bits (78), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 27/124 (21%), Positives = 54/124 (43%), Gaps = 9/124 (7%)

Query: 318 AKSGDFEEAIRITEKMKIVGSKPDSRFFNCLIYTLGRASRVQEAV--------YVYQVEM 369
           +K GD  EA+R+ ++ +  G +     +N L+Y    A    E+         +    +M
Sbjct: 37  SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM 96

Query: 370 PENGVAPDTSTFNTMITMFSHHGHHEKAFHVLEEMNKLEHCKPNVQTFHPLLKSCFKTGK 429
             + V P+ +TF     +       E AF ++++M K    +P ++++ P L    + G 
Sbjct: 97  IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQM-KAFGIQPRLRSYGPALFGFCRKGD 155

Query: 430 TDEC 433
            D+ 
Sbjct: 156 ADKA 159



 Score = 30.8 bits (68), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 11/35 (31%), Positives = 20/35 (57%)

Query: 260 IQEMKGHGCHPCVISYSTIIQSYCRQYNFSKVYEL 294
           +++MK  G  P + SY   +  +CR+ +  K YE+
Sbjct: 128 VKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162



 Score = 30.4 bits (67), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 17/77 (22%), Positives = 31/77 (40%)

Query: 288 FSKVYELLDEMQAQGCPPNVVTYTTVMSYLAKSGDFEEAIRITEKMKIVGSKPDSRFFNC 347
            S+ +++  +M      PN  T+T          D E A  + ++MK  G +P  R +  
Sbjct: 86  LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP 145

Query: 348 LIYTLGRASRVQEAVYV 364
            ++   R     +A  V
Sbjct: 146 ALFGFCRKGDADKAYEV 162


>pdb|2R8Q|A Chain A, Structure Of Lmjpdeb1 In Complex With Ibmx
 pdb|2R8Q|B Chain B, Structure Of Lmjpdeb1 In Complex With Ibmx
          Length = 359

 Score = 30.8 bits (68), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 1/35 (2%)

Query: 186 DAVRTFDELGTFGLEKNTET-MNLLLDTLCKEGKV 219
           DA+  F EL T G EK+ +T   L+++TL K G V
Sbjct: 221 DALSRFTELATSGFEKDNDTHRRLVMETLIKAGDV 255


  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
   0.322    0.135    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,687,902
Number of Sequences: 62578
Number of extensions: 648971
Number of successful extensions: 1748
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1745
Number of HSP's gapped (non-prelim): 6
length of query: 515
length of database: 14,973,337
effective HSP length: 103
effective length of query: 412
effective length of database: 8,527,803
effective search space: 3513454836
effective search space used: 3513454836
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)