RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7278
         (106 letters)



>1v54_H AED, cytochrome C oxidase polypeptide VIB; oxidoreductase; HET:
          FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos
          taurus} SCOP: a.51.1.1 PDB: 1oco_H* 1occ_H* 1ocz_H*
          1ocr_H* 1v55_H* 2dyr_H* 2dys_H* 2eij_H* 2eik_H* 2eil_H*
          2eim_H* 2ein_H* 2occ_H* 2ybb_S* 2zxw_H* 3abk_H* 3abl_H*
          3abm_H* 3ag1_H* 3ag2_H* ...
          Length = 85

 Score = 78.4 bits (193), Expect = 8e-21
 Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 3/77 (3%)

Query: 25 EEHKQLSTCLPDPRFQQVNITNWCWTMFVDHKRCSNLL---GEGRADCAIFKKCYESICP 81
           + K   T   D RF   N T  CW  ++D  RC   +   G   + C  +++ Y+S+CP
Sbjct: 6  AKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCP 65

Query: 82 NAWVEQWEDQIENNIFP 98
           +WV  W+D+     FP
Sbjct: 66 ISWVSTWDDRRAEGTFP 82


>1ijq_A LDL receptor, low-density lipoprotein receptor; beta-propeller,
           lipid transport; 1.50A {Homo sapiens} SCOP: b.68.5.1
           g.3.11.1
          Length = 316

 Score = 25.0 bits (54), Expect = 6.1
 Identities = 9/48 (18%), Positives = 14/48 (29%), Gaps = 5/48 (10%)

Query: 40  QQVNITNWCWTMFVDHKRCSN--LLGEGRADCAIFKKCYESICPNAWV 85
            Q    NWC    + +  C    L        +    C    CP+  +
Sbjct: 262 TQPRGVNWCERTTLSNGGCQYLCLPAPQINPHSPKFTC---ACPDGML 306


>3kep_A Nucleoporin NUP145; nuclear pore complex, NUP145-N,yeast,
           autoproteolysis, protein maturation, post-translational
           modification; 1.82A {Saccharomyces cerevisiae} PDB:
           3kes_A*
          Length = 174

 Score = 24.4 bits (53), Expect = 7.2
 Identities = 6/44 (13%), Positives = 15/44 (34%)

Query: 12  GEFIRDGMICKPLEEHKQLSTCLPDPRFQQVNITNWCWTMFVDH 55
            + ++D       +   +    + +  +   N     WT  V+H
Sbjct: 122 KKPMKDTTKFAEFQVFDRKLRSMREMNYISYNPFGGTWTFKVNH 165


  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
   0.323    0.138    0.480 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,659,442
Number of extensions: 81197
Number of successful extensions: 166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 11
Length of query: 106
Length of database: 6,701,793
Length adjustment: 71
Effective length of query: 35
Effective length of database: 4,719,402
Effective search space: 165179070
Effective search space used: 165179070
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 (23.7 bits)