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= 038108
         (67 letters)

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

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



>pdb|1RQG|A Chain A, Methionyl-Trna Synthetase From Pyrococcus Abyssi
          Length = 722

 Score = 33.1 bits (74), Expect = 0.038,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 7   CSEEERELGRQQAPGSCPYCGGKVLAIDFESQCRFCFLPICYNIKKKYFCSLCSR 61
           C  ++  L  +   G+CPYCG +    D   QC  C  P+   I     C++C R
Sbjct: 127 CEHDKMFLPDRFVIGTCPYCGAEDQKGD---QCEVCGRPLTPEILINPRCAICGR 178


>pdb|3RFU|A Chain A, Crystal Structure Of A Copper-Transporting Pib-Type
          Atpase
 pdb|3RFU|B Chain B, Crystal Structure Of A Copper-Transporting Pib-Type
          Atpase
 pdb|3RFU|C Chain C, Crystal Structure Of A Copper-Transporting Pib-Type
          Atpase
 pdb|3RFU|D Chain D, Crystal Structure Of A Copper-Transporting Pib-Type
          Atpase
          Length = 736

 Score = 28.5 bits (62), Expect = 0.98,   Method: Composition-based stats.
 Identities = 12/25 (48%), Positives = 13/25 (52%), Gaps = 2/25 (8%)

Query: 3  LVYVCSEEERELGRQQAPGSCPYCG 27
          +VY C        RQ APG CP CG
Sbjct: 38 IVYTCPMHPEI--RQSAPGHCPLCG 60


>pdb|3VDU|A Chain A, Structure Of Recombination Mediator Protein Recrk21g
          Mutant
          Length = 212

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 33 IDFESQCRFCFLPICYNIKKKYFCSLCS 60
          I+ + + R+C   IC+NI  K  C +CS
Sbjct: 62 IEAKEKLRYC--KICFNITDKEVCDICS 87


>pdb|3VDP|A Chain A, Structure And Biochemical Studies Of The Recombination
          Mediator Protein Recr In Recfor Pathway
 pdb|3VDP|B Chain B, Structure And Biochemical Studies Of The Recombination
          Mediator Protein Recr In Recfor Pathway
 pdb|3VDP|C Chain C, Structure And Biochemical Studies Of The Recombination
          Mediator Protein Recr In Recfor Pathway
 pdb|3VDP|D Chain D, Structure And Biochemical Studies Of The Recombination
          Mediator Protein Recr In Recfor Pathway
          Length = 212

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 33 IDFESQCRFCFLPICYNIKKKYFCSLCS 60
          I+ + + R+C   IC+NI  K  C +CS
Sbjct: 62 IEAKEKLRYC--KICFNITDKEVCDICS 87


>pdb|4GLX|A Chain A, Dna Ligase A In Complex With Inhibitor
          Length = 586

 Score = 26.6 bits (57), Expect = 3.5,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 23/57 (40%)

Query: 6   VCSEEERELGRQQAPGSCPYCGGKVLAIDFESQCRFCFLPICYNIKKKYFCSLCSRR 62
           V SE   +      P  CP CG  V  ++ E+  R     IC   +K+      SRR
Sbjct: 391 VLSERPEDTREVVFPTHCPVCGSDVERVEGEAVARCTGGLICGAQRKESLKHFVSRR 447


>pdb|2OWO|A Chain A, Last Stop On The Road To Repair: Structure Of E.Coli Dna
           Ligase Bound To Nicked Dna-Adenylate
          Length = 671

 Score = 26.6 bits (57), Expect = 3.5,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 23/57 (40%)

Query: 6   VCSEEERELGRQQAPGSCPYCGGKVLAIDFESQCRFCFLPICYNIKKKYFCSLCSRR 62
           V SE   +      P  CP CG  V  ++ E+  R     IC   +K+      SRR
Sbjct: 391 VLSERPEDTREVVFPTHCPVCGSDVERVEGEAVARCTGGLICGAQRKESLKHFVSRR 447


>pdb|3VE5|D Chain D, Structure Of Recombination Mediator Protein Recr16-196
          Deletion Mutant
 pdb|3VE5|A Chain A, Structure Of Recombination Mediator Protein Recr16-196
          Deletion Mutant
          Length = 194

 Score = 25.0 bits (53), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)

Query: 33 IDFESQCRFCFLPICYNIKKKYFCSLCS 60
          I+ + + R+C   IC+NI  K  C +CS
Sbjct: 44 IEAKEKLRYC--KICFNITDKEVCDICS 69


  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
   0.331    0.145    0.507 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,067,584
Number of Sequences: 62578
Number of extensions: 63988
Number of successful extensions: 152
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 148
Number of HSP's gapped (non-prelim): 11
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)