RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8271
         (65 letters)



>3drx_A BTB/POZ domain-containing protein KCTD5; golgi, grAsp55, potassium
           channel domain T1, pentameric assembly, HOST-virus
           interaction, nucleus; 3.11A {Homo sapiens} PDB: 3dry_A
          Length = 202

 Score = 68.8 bits (168), Expect = 1e-16
 Identities = 41/62 (66%), Positives = 49/62 (79%), Gaps = 1/62 (1%)

Query: 4   QEAEFYNIAELVRLIKDRICTRDSLSVKDANKKHVYRVIQCHEDELTQMVSTMSDGWKFE 63
           +EAEFYNI  L++L+KD+I  RDS        KHVYRV+QC E+ELTQMVSTMSDGWKFE
Sbjct: 92  EEAEFYNITSLIKLVKDKIRERDS-KTSQVPVKHVYRVLQCQEEELTQMVSTMSDGWKFE 150

Query: 64  QV 65
           Q+
Sbjct: 151 QL 152


>3drz_A BTB/POZ domain-containing protein KCTD5; potassium channel domain
           T1, pentamer, unkno function; 1.90A {Homo sapiens}
          Length = 107

 Score = 33.8 bits (78), Expect = 6e-04
 Identities = 13/22 (59%), Positives = 18/22 (81%)

Query: 4   QEAEFYNIAELVRLIKDRICTR 25
           +EAEFYNI  L++L+KD+I  R
Sbjct: 86  EEAEFYNITSLIKLVKDKIRER 107


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
            acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
            synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 27.7 bits (61), Expect = 0.22
 Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 3/53 (5%)

Query: 6    AEFYNIAELVRLIKDRICTRDSLSVKDANKKHVYRVIQCHEDELTQMVSTMSD 58
            A+  +I  LV ++  R  T      +D   +  Y +I  +     ++ ++ S 
Sbjct: 1774 ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPG---RVAASFSQ 1823



 Score = 24.6 bits (53), Expect = 3.0
 Identities = 3/16 (18%), Positives = 8/16 (50%)

Query: 28  LSVKDANKKHVYRVIQ 43
           LS+ +  ++ V   + 
Sbjct: 339 LSISNLTQEQVQDYVN 354


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 25.2 bits (54), Expect = 1.8
 Identities = 6/47 (12%), Positives = 17/47 (36%), Gaps = 6/47 (12%)

Query: 11  IAELVRLIKDRICTRDSLSVKDANKK-----HVYRVIQCHEDELTQM 52
           I   V ++ +++    SL  K   +       +Y  ++   +    +
Sbjct: 400 IKSDVMVVVNKLHKY-SLVEKQPKESTISIPSIYLELKVKLENEYAL 445


>1m22_A Peptide amidase, PAM; eleven-stranded beta sheet, covered double
          layers of alpha helices on TOP and bottom, hydrolase;
          HET: EPE; 1.40A {Stenotrophomonas maltophilia} SCOP:
          c.117.1.1 PDB: 1m21_A*
          Length = 503

 Score = 24.8 bits (55), Expect = 2.3
 Identities = 4/10 (40%), Positives = 5/10 (50%)

Query: 17 LIKDRICTRD 26
          L+KD I    
Sbjct: 84 LLKDNINAAP 93


>2ojl_A Hypothetical protein; BPR68, NESG, Q7WAF1, structural genomics,
          PSI-2, protein STR initiative, northeast structural
          genomics consortium; 2.10A {Bordetella parapertussis}
          Length = 108

 Score = 23.6 bits (51), Expect = 4.4
 Identities = 6/29 (20%), Positives = 10/29 (34%)

Query: 8  FYNIAELVRLIKDRICTRDSLSVKDANKK 36
          F     L + ++D +     L   D   K
Sbjct: 71 FPEAKVLKQRVRDHLDPGRPLGHIDGRPK 99


>1nrv_A Growth factor receptor-bound protein 10; dimer, signaling
          protein; 1.65A {Homo sapiens} SCOP: d.93.1.1 PDB:
          3m7f_A
          Length = 105

 Score = 23.4 bits (51), Expect = 5.2
 Identities = 9/38 (23%), Positives = 15/38 (39%), Gaps = 3/38 (7%)

Query: 27 SLSVKDANK-KHVYRVIQCHEDELTQMVSTMSDGWKFE 63
           L++    K K+ ++ I   ED+     S      KF 
Sbjct: 44 VLTLCHHQKIKN-FQ-ILPCEDDGQTFFSLDDGNTKFS 79


>2fa8_A Hypothetical protein ATU0228; ALPH-beta structure, 4 helix
          bundle, structural genomics, PS protein structure
          initiative; 1.90A {Agrobacterium tumefaciens str} SCOP:
          c.47.1.23
          Length = 105

 Score = 23.2 bits (50), Expect = 6.0
 Identities = 7/21 (33%), Positives = 9/21 (42%)

Query: 8  FYNIAELVRLIKDRICTRDSL 28
          F    EL + I+D I     L
Sbjct: 70 FPGPKELKQRIRDLIDPERDL 90


>3kvt_A Potassium channel protein SHAW; tetramerization domain, molecular
           recogni zinc-binding; 2.00A {Aplysia californica} SCOP:
           d.42.1.2
          Length = 115

 Score = 23.1 bits (50), Expect = 6.3
 Identities = 5/36 (13%), Positives = 14/36 (38%), Gaps = 3/36 (8%)

Query: 1   MYTQEAEFYNIAELVRLIKDRICTRDSLSVKDANKK 36
           ++ +E EF+ +        +  C     + +D  + 
Sbjct: 79  LFEEELEFWGLDSNQV---EPCCWMTYTAHRDTQET 111


  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
   0.321    0.131    0.385 

Gapped
Lambda     K      H
   0.267   0.0677    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 942,072
Number of extensions: 38231
Number of successful extensions: 109
Number of sequences better than 10.0: 1
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 16
Length of query: 65
Length of database: 6,701,793
Length adjustment: 36
Effective length of query: 29
Effective length of database: 5,696,637
Effective search space: 165202473
Effective search space used: 165202473
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.5 bits)