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= 014887
         (416 letters)

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

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



>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp Family
           Of Plant Myb-Related Dna Binding Motifs Of The
           Arabidopsis Response Regulators
          Length = 64

 Score = 56.2 bits (134), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/60 (41%), Positives = 41/60 (68%), Gaps = 1/60 (1%)

Query: 42  STDAKPRLKWTPDLHERFIEAVNQLGGADKATPKTVMKLMGIPGLTLYHLKSHLQKYRLS 101
           +   KPR+ WT +LH +F+ AV+ LG  ++A PK ++ LM +  LT  ++ SHLQK+R++
Sbjct: 1   TAQKKPRVLWTHELHNKFLAAVDHLG-VERAVPKKILDLMNVDKLTRENVASHLQKFRVA 59


>pdb|3NU1|A Chain A, Structure Of Holo Form Of A Periplasmic Heme Binding
           Protein
 pdb|3NU1|B Chain B, Structure Of Holo Form Of A Periplasmic Heme Binding
           Protein
          Length = 254

 Score = 31.6 bits (70), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 7/55 (12%)

Query: 124 KFKSSGVGPVTVPGERMPEANATHMNNLSIGPQPNKSLHISETIQMQIE-VQRRL 177
           +  SSGV  VTVPG+  PE+ A  +N ++       +LH +E  Q  IE  Q+RL
Sbjct: 76  QIASSGVNVVTVPGQTTPESVAMKINAVA------TALHQTEKGQKLIEDYQQRL 124


>pdb|3MD9|A Chain A, Structure Of Apo Form Of A Periplasmic Heme Binding
           Protein
 pdb|3MD9|B Chain B, Structure Of Apo Form Of A Periplasmic Heme Binding
           Protein
          Length = 255

 Score = 31.6 bits (70), Expect = 0.84,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 7/55 (12%)

Query: 124 KFKSSGVGPVTVPGERMPEANATHMNNLSIGPQPNKSLHISETIQMQIE-VQRRL 177
           +  SSGV  VTVPG+  PE+ A  +N ++       +LH +E  Q  IE  Q+RL
Sbjct: 77  QIASSGVNVVTVPGQTTPESVAMKINAVA------TALHQTEKGQKLIEDYQQRL 125


>pdb|1WKB|A Chain A, Crystal Structure Of Leucyl-Trna Synthetase From The
           Archaeon Pyrococcus Horikoshii Reveals A Novel Editing
           Domain Orientation
          Length = 810

 Score = 30.8 bits (68), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 38/160 (23%), Positives = 61/160 (38%), Gaps = 23/160 (14%)

Query: 239 NSTFSDLKELQGF--CPQQPQANQPTDCSMDSC--LTSCEGSQKDQEIHNGGVRLRPYHG 294
           N T+  L +L+G+   P   + N+    S      L     +    E H G  ++ PY G
Sbjct: 358 NITYISLIKLEGYGDFPAVEEVNKLGIKSQKDKEKLEQATKTIYKAEYHKGIFKVPPYEG 417

Query: 295 TPTLEPKEIVEEPMLQQTELKWRKDLKESKFLSSIGKDRGPGELSIGSGSFPAGRFKASN 354
            P  E KE + + ML++   +   +  E   +S  G +R   ++                
Sbjct: 418 KPVQEVKEAIAKEMLEKGIAEIMYEFAEKNVISRFG-NRAVIKII--------------- 461

Query: 355 EDEHFQDQTN---KKPEGAKLENENLLPEYRLPCFSTKLD 391
            D+ F D  N   K+     LE   +LPE R   F   +D
Sbjct: 462 HDQWFIDYGNPEWKEKARKALERMKILPETRRAQFEAIID 501


>pdb|1WZ2|A Chain A, The Crystal Structure Of Leucyl-Trna Synthetase And
           Trna(Leucine) Complex
 pdb|1WZ2|B Chain B, The Crystal Structure Of Leucyl-Trna Synthetase And
           Trna(Leucine) Complex
          Length = 967

 Score = 30.4 bits (67), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 38/160 (23%), Positives = 61/160 (38%), Gaps = 23/160 (14%)

Query: 239 NSTFSDLKELQGF--CPQQPQANQPTDCSMDSC--LTSCEGSQKDQEIHNGGVRLRPYHG 294
           N T+  L +L+G+   P   + N+    S      L     +    E H G  ++ PY G
Sbjct: 358 NITYISLIKLEGYGDFPAVEEVNKLGIKSQKDKEKLEQATKTIYKAEYHKGIFKVPPYEG 417

Query: 295 TPTLEPKEIVEEPMLQQTELKWRKDLKESKFLSSIGKDRGPGELSIGSGSFPAGRFKASN 354
            P  E KE + + ML++   +   +  E   +S  G +R   ++                
Sbjct: 418 KPVQEVKEAIAKEMLEKGIAEIMYEFAEKNVISRFG-NRAVIKII--------------- 461

Query: 355 EDEHFQDQTN---KKPEGAKLENENLLPEYRLPCFSTKLD 391
            D+ F D  N   K+     LE   +LPE R   F   +D
Sbjct: 462 HDQWFIDYGNPEWKEKARKALERMKILPETRRAQFEAIID 501


  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
   0.313    0.131    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,935,053
Number of Sequences: 62578
Number of extensions: 542915
Number of successful extensions: 923
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 916
Number of HSP's gapped (non-prelim): 18
length of query: 416
length of database: 14,973,337
effective HSP length: 101
effective length of query: 315
effective length of database: 8,652,959
effective search space: 2725682085
effective search space used: 2725682085
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)