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= 038401
         (542 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 = 35.4 bits (80), Expect = 0.076,   Method: Compositional matrix adjust.
 Identities = 28/116 (24%), Positives = 53/116 (45%), Gaps = 9/116 (7%)

Query: 212 DADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA---------IHLFRLMQRKEIEQ 262
           +A RL+   R+ G+  S   YN LL V   AE   E+           +F+ M   ++  
Sbjct: 44  EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP 103

Query: 263 NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRA 318
           N  T+    ++     + E A +++++M+  GI+P   +Y   +  + + G  D+A
Sbjct: 104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159



 Score = 35.4 bits (80), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 11/104 (10%)

Query: 41  LFDEMRQRGIAPDRYTYSTLI-TCFGKEGMFDSA--------ISWLQQMEQDRVSGDLVL 91
           L+DE R+ G+   +Y Y+ L+  C   E   +S+            +QM  D+V  +   
Sbjct: 48  LYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT 107

Query: 92  YSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFG 135
           ++N   LA    D   A  +  ++K+ GI P L +Y   +  FG
Sbjct: 108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPAL--FG 149


>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana, Semet Substituted Form With Sr
          Length = 501

 Score = 31.2 bits (69), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 27/104 (25%), Positives = 44/104 (42%), Gaps = 11/104 (10%)

Query: 41  LFDEMRQRGIAPDRYTYSTLI-TCFGKEGMFDSA--------ISWLQQMEQDRVSGDLVL 91
           L+DE R+ G+   +Y Y+ L+  C   E   +S+            +Q   D+V  +   
Sbjct: 48  LYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEAT 107

Query: 92  YSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFG 135
           ++N   LA    D   A     + K+ GI P L +Y   +  FG
Sbjct: 108 FTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPAL--FG 149



 Score = 30.0 bits (66), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 9/116 (7%)

Query: 212 DADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA---------IHLFRLMQRKEIEQ 262
           +A RL+   R+ G+  S   YN LL V   AE   E+           +F+     ++  
Sbjct: 44  EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVP 103

Query: 263 NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRA 318
           N  T+    ++     + E A + +++ +  GI+P   +Y   +  + + G  D+A
Sbjct: 104 NEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKA 159


>pdb|4H6Q|A Chain A, Structure Of Oxidized Deinococcus Radiodurans Proline
           Dehydrogenase Complexed With L-Tetrahydrofuroic Acid
 pdb|4H6Q|C Chain C, Structure Of Oxidized Deinococcus Radiodurans Proline
           Dehydrogenase Complexed With L-Tetrahydrofuroic Acid
 pdb|4H6R|A Chain A, Structure Of Reduced Deinococcus Radiodurans Proline
           Dehydrogenase
 pdb|4H6R|C Chain C, Structure Of Reduced Deinococcus Radiodurans Proline
           Dehydrogenase
          Length = 312

 Score = 30.0 bits (66), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 71  DSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYS-KAISIFSRLKSSGIVP 122
           +SAI  +Q +E+D ++G+L L    I+   K ++++   I +     ++GI P
Sbjct: 43  ESAIQAVQALERDGIAGNLDLLGEFIDSPAKCTEFADDVIKLIEAAHAAGIKP 95


  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    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,889,500
Number of Sequences: 62578
Number of extensions: 587693
Number of successful extensions: 1544
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1538
Number of HSP's gapped (non-prelim): 16
length of query: 542
length of database: 14,973,337
effective HSP length: 104
effective length of query: 438
effective length of database: 8,465,225
effective search space: 3707768550
effective search space used: 3707768550
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)