RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5244
         (90 letters)



>1rz4_A Eukaryotic translation initiation factor 3 subuni; heat analogous
           motif, winged-helix, biosynthetic protein; 2.10A {Homo
           sapiens} SCOP: a.4.5.53 a.118.1.18
          Length = 226

 Score = 70.9 bits (173), Expect = 9e-17
 Identities = 27/53 (50%), Positives = 41/53 (77%)

Query: 36  DQTDSTLRLWVKKYGWKELDNGYIFIANQDENIKTKNITEKIEFENAATIMTS 88
           D +DS L++W+ KYGW   ++G IFI +Q+E+IK KNI EKI+F++ ++IM S
Sbjct: 164 DLSDSQLKVWMSKYGWSADESGQIFICSQEESIKPKNIVEKIDFDSVSSIMAS 216


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 28.2 bits (62), Expect = 0.27
 Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 11/64 (17%)

Query: 16  QQSVRLSSCGPSTKDTKTKADQTDSTLRLWVKKYGWKELDNGYIFIANQDENIKTKNITE 75
           +Q  RL        D  +K  + +     W +K   K+L+      + Q E  K  N   
Sbjct: 93  EQRKRLQE-----LDAASKVMEQE-----WREK-AKKDLEEWNQRQSEQVEKNKINNRIA 141

Query: 76  KIEF 79
              F
Sbjct: 142 DKAF 145


>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
          sliding clamp, AAA+ at polymerase, DNA-binding protein;
          HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
          a.80.1.1 c.37.1.20
          Length = 353

 Score = 26.7 bits (59), Expect = 1.1
 Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 6/57 (10%)

Query: 22 SSCGPSTKDTKTKADQTDSTLR-LWVKKYGWKELDNGYIFIANQDENIKT-KNITEK 76
             GP+ K   +K     S  +  WV+KY  K LD     +  QD  +   K   + 
Sbjct: 3  EGFGPNKKRKISKLAAEQSLAQQPWVEKYRPKNLDE----VTAQDHAVTVLKKTLKS 55


>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
           mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
           SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
          Length = 758

 Score = 26.1 bits (58), Expect = 1.5
 Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 10/37 (27%)

Query: 54  LDNGYIFIANQDENIKTKNITEKIEFENAATIMTSNV 90
           +DNG +          T N   K +F N   +MT+N 
Sbjct: 581 MDNGTL----------TDNNGRKADFRNVVLVMTTNA 607


>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
           proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
           binding; 6.93A {Bacillus subtilis}
          Length = 758

 Score = 26.0 bits (58), Expect = 1.7
 Identities = 8/15 (53%), Positives = 10/15 (66%)

Query: 76  KIEFENAATIMTSNV 90
            ++F N   IMTSNV
Sbjct: 615 TVDFRNTILIMTSNV 629


>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure,
          structural genomics, protein structure initiative; NMR
          {Corynebacterium glutamicum} SCOP: a.4.1.19
          Length = 97

 Score = 24.3 bits (53), Expect = 5.0
 Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 2/37 (5%)

Query: 16 QQSVRL--SSCGPSTKDTKTKADQTDSTLRLWVKKYG 50
          + +V L  +S G S +           TL+ W+ KYG
Sbjct: 12 RDAVALYENSDGASLQQIANDLGINRVTLKNWIIKYG 48


>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
           thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
          Length = 311

 Score = 24.8 bits (55), Expect = 5.0
 Identities = 7/14 (50%), Positives = 10/14 (71%)

Query: 77  IEFENAATIMTSNV 90
           ++F N   IMTSN+
Sbjct: 156 VDFRNTVIIMTSNL 169


  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
   0.311    0.125    0.355 

Gapped
Lambda     K      H
   0.267   0.0797    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,173,484
Number of extensions: 51294
Number of successful extensions: 111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 12
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (23.3 bits)