RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy424
         (98 letters)



>2wwb_C SEC61BETA, protein transport protein SEC61 subunit beta;
          ribosome, protein EXIT tunnel, cotranslational protein
          translocation, protein conducting channel; 6.48A {Canis
          lupus familiaris}
          Length = 96

 Score = 74.8 bits (183), Expect = 2e-19
 Identities = 54/96 (56%), Positives = 65/96 (67%)

Query: 1  MTPAPASSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYT 60
          M     S T+VGS  RSP           +  +++  +  T +    T AG+GGMWR+YT
Sbjct: 1  MPGPTPSGTNVGSSGRSPSKAVAARAAGSTVRQRKNASCGTRSAGRTTSAGTGGMWRFYT 60

Query: 61 DDSPGIKVGPVPVLVMSLLFIASVFMLHIWGKYTRS 96
          +DSPG+KVGPVPVLVMSLLFIASVFMLHIWGKYTRS
Sbjct: 61 EDSPGLKVGPVPVLVMSLLFIASVFMLHIWGKYTRS 96


>2ww9_C Protein transport protein SEB2; ribonucleoprotein, transmembrane,
          phospho signal sequence, membrane, ribosome, transport;
          8.60A {Saccharomyces cerevisiae} PDB: 2wwa_C
          Length = 87

 Score = 68.7 bits (167), Expect = 4e-17
 Identities = 23/69 (33%), Positives = 36/69 (52%)

Query: 26 RPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDDSPGIKVGPVPVLVMSLLFIASVF 85
          R   S   ++   T T+ R    G  S  + + YTD++ G +V  + VL +S+ FI SV 
Sbjct: 17 RQAQSIKEKQAKQTPTSTRQAGYGGSSSSILKLYTDEANGFRVDSLVVLFLSVGFIFSVI 76

Query: 86 MLHIWGKYT 94
           LH+  K+T
Sbjct: 77 ALHLLTKFT 85


>1rh5_C Secbeta; protein translocation, SECY, membrane protein, protein
          channels, protein transport; 3.20A {Methanocaldococcus
          jannaschii} SCOP: f.23.29.1 PDB: 1rhz_C 2yxq_C 2yxr_C
          3kcr_C 3dkn_C 3bo1_C 3bo0_C
          Length = 53

 Score = 26.2 bits (57), Expect = 0.63
 Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 42 AARSNRTGAGSGGMWRYYTDDSPGIKVGPVPVLVMSLLFIASVFMLHIWGKY 93
          + R     A S G+ RY  +    I+V P  V+ +++ F+    +L  +G++
Sbjct: 2  SKREETGLATSAGLIRYMDETFSKIRVKPEHVIGVTVAFVIIEAILT-YGRF 52


>3ugj_A Phosphoribosylformylglycinamidine synthase; amidotransferase,
           glutaminase, thioester intermediate, ligas; HET: ADP;
           1.78A {Salmonella enterica subsp} PDB: 1t3t_A* 3ujn_A*
           3umm_A*
          Length = 1303

 Score = 26.5 bits (58), Expect = 1.8
 Identities = 10/32 (31%), Positives = 15/32 (46%)

Query: 1   MTPAPASSTSVGSGTRSPKAGGPGGRPTGSTV 32
           ++P P ++T  G   R   A G G +P    V
Sbjct: 310 ISPWPGAATGSGGEIRDEGATGRGAKPKAGLV 341


>1hkh_A Gamma lactamase; hydrolase, alpha/beta hydrolase, CO-factor free
           haloperoxidase,; 1.73A {Microbacterium} SCOP: c.69.1.12
           PDB: 1hl7_A*
          Length = 279

 Score = 25.8 bits (57), Expect = 2.8
 Identities = 3/18 (16%), Positives = 8/18 (44%)

Query: 59  YTDDSPGIKVGPVPVLVM 76
           +  D   ++    P L++
Sbjct: 208 FRSDVEAVRAAGKPTLIL 225


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 25.3 bits (54), Expect = 3.1
 Identities = 5/13 (38%), Positives = 8/13 (61%), Gaps = 1/13 (7%)

Query: 57 RYYTDDS-PGIKV 68
          + Y DDS P + +
Sbjct: 30 KLYADDSAPALAI 42


>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings,
           fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus
           gallus} SCOP: h.1.8.1 PDB: 1ei3_A
          Length = 491

 Score = 25.3 bits (54), Expect = 4.1
 Identities = 9/59 (15%), Positives = 17/59 (28%)

Query: 7   SSTSVGSGTRSPKAGGPGGRPTGSTVRQRKPTTTTAARSNRTGAGSGGMWRYYTDDSPG 65
           +   + S  R           + S+V +   T T    S   G     + +  + D   
Sbjct: 264 TGKLITSSHRRESPSLVDKTSSASSVHRCTRTVTKKVISGPDGPREEIVEKMVSSDGSD 322


  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
   0.313    0.129    0.392 

Gapped
Lambda     K      H
   0.267   0.0545    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,441,910
Number of extensions: 74535
Number of successful extensions: 125
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 13
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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 (21.9 bits)
S2: 51 (23.8 bits)