RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy8
         (50 letters)



>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
            microtubles, motor protein; HET: ADP SPM; 2.81A
            {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
          Length = 3245

 Score = 80.7 bits (199), Expect = 2e-20
 Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 2/49 (4%)

Query: 1    MQNYARKMTIPIDHLTFDFVVLQINKSEAPPEDGVYCYGLFLDGARWDR 49
             Q+ ++     +++L      L   K  +         G+ L+GA W+ 
Sbjct: 3120 RQSASQLNGWSLENLRLHASSL--GKISSEGGASFNVKGMALEGAVWNN 3166


>2cu0_A Inosine-5'-monophosphate dehydrogenase; structural genomics,
          pyrococcus horikoshii OT3, riken structural
          genomics/PROT initiative, RSGI; HET: XMP; 2.10A
          {Pyrococcus horikoshii} SCOP: c.1.5.1
          Length = 486

 Score = 29.4 bits (67), Expect = 0.025
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 1  MQNYARKMTIPIDHLTFDFVVLQINKSEAPPED 33
          M  +  K+   I   TFD V+L    +E  P+D
Sbjct: 1  MGKFVEKLEKAIKGYTFDDVLLIPQATEVEPKD 33


>1wth_A Protein GP5, tail-associated lysozyme; triple-stranded
          beta-helix, OB fold, pseudohexamer, T4 tail HUB,
          GP5-GP27; 2.80A {Enterobacteria phage T4} PDB: 2z6b_A
          1k28_A 1pdl_A
          Length = 584

 Score = 23.5 bits (49), Expect = 3.4
 Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 8/48 (16%)

Query: 7  KMTIPIDHLTFDFVVLQIN--------KSEAPPEDGVYCYGLFLDGAR 46
           M IP + L +  V+  I          S   P +G   YG FLD  +
Sbjct: 44 VMGIPTEKLPWMSVIQPITSAAMSGIGGSVTGPVEGTRVYGHFLDKWK 91


>3op1_A Macrolide-efflux protein; structural genomics, PSI-2, protein
           structure initiative, MI center for structural genomics,
           MCSG; HET: PEG; 2.49A {Streptococcus pneumoniae}
          Length = 308

 Score = 23.2 bits (51), Expect = 4.2
 Identities = 6/27 (22%), Positives = 11/27 (40%)

Query: 22  LQINKSEAPPEDGVYCYGLFLDGARWD 48
           L +      P DGVY   + +   ++ 
Sbjct: 213 LVLLDRTYMPADGVYVVDVEIQRQKYR 239


>3v7n_A Threonine synthase; ssgcid, structural genomics, seattle structural
           genomics CEN infectious disease, lyase; 1.40A
           {Burkholderia thailandensis}
          Length = 487

 Score = 23.1 bits (50), Expect = 4.7
 Identities = 6/12 (50%), Positives = 8/12 (66%)

Query: 4   YARKMTIPIDHL 15
            AR M +PI+ L
Sbjct: 284 IARMMGLPIEKL 295


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.325    0.142    0.462 

Gapped
Lambda     K      H
   0.267   0.0600    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 836,312
Number of extensions: 33199
Number of successful extensions: 100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 99
Number of HSP's successfully gapped: 5
Length of query: 50
Length of database: 6,701,793
Length adjustment: 23
Effective length of query: 27
Effective length of database: 6,059,610
Effective search space: 163609470
Effective search space used: 163609470
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.7 bits)