RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14777
         (158 letters)



>2cly_C ATP synthase coupling factor 6, mitochondrial; mitochondrion, ION
           transport, CF(0), stator, transport, acetylation,
           hydrogen ION transport; 2.8A {Bos taurus} SCOP: f.45.1.1
           PDB: 1vzs_A 2wss_V*
          Length = 77

 Score = 93.1 bits (231), Expect = 6e-26
 Identities = 31/74 (41%), Positives = 43/74 (58%), Gaps = 4/74 (5%)

Query: 81  LKNASDPIQQLFLDKLSEYKSKS-TGGKLVDPTPEIERELKADLSKTAKQYGGDGKEDMT 139
                DP+Q+LF+DK+ EY++K  T G  VD  PE +++L  +L K  + YG     DM 
Sbjct: 1   FNKELDPVQKLFVDKIREYRTKRQTSGGPVDAGPEYQQDLDRELFKLKQMYGK---ADMN 57

Query: 140 KFPNFQFPEPKIEP 153
            FPNF F +PK E 
Sbjct: 58  TFPNFTFEDPKFEV 71


>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 = 29.4 bits (65), Expect = 0.63
 Identities = 31/165 (18%), Positives = 60/165 (36%), Gaps = 28/165 (16%)

Query: 12  KNVSQN-LTRNLATSYVALKNASDPIQQLFLDKLSEYKSKSAMLTPQLFVCV----RKNV 66
           K+V+ + LT  + +S   L+      +++F   LS +   SA +   L   +     K+ 
Sbjct: 348 KHVNCDKLTTIIESSLNVLE--PAEYRKMFDR-LSVF-PPSAHIPTILLSLIWFDVIKSD 403

Query: 67  SQNLTRNLATSYVALKNASDP---IQQLFLDKLSEYKSKSTG-GKLVDPTPEIERELKAD 122
              +   L    +  K   +    I  ++L+   + +++      +VD     +     D
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463

Query: 123 LSKTAK-----QYGG------DGKEDMTKFP----NFQFPEPKIE 152
           L           + G      +  E MT F     +F+F E KI 
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIR 508


>3b5o_A CADD-like protein of unknown function; structural genomics, center
           for structural genomics, JCSG, protein structure INI
           PSI-2, oxidoreductase; HET: MSE; 1.35A {Nostoc
           punctiforme} PDB: 3b5p_A*
          Length = 244

 Score = 26.8 bits (58), Expect = 2.9
 Identities = 17/97 (17%), Positives = 33/97 (34%), Gaps = 9/97 (9%)

Query: 12  KNVSQNLTRNLATSYVALKNASDPIQQLFLDKLSEYKSKSAMLTPQLFVCVRKNVSQNLT 71
            ++++ L + LA  YVA     +P+ Q+            A +  Q  +       + L 
Sbjct: 5   NHLTKQLNQLLAQDYVAFSITENPVVQMLSQASFAQ---IAYVMQQYSI-----FPKELV 56

Query: 72  RNLATSYVALKNASDP-IQQLFLDKLSEYKSKSTGGK 107
                +      A    + Q   + + E    +TGG 
Sbjct: 57  GFTELARRKALGAGWNGVAQELQENIDEEMGSTTGGI 93


>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
           acid, aminoacylation, trnaLeu, structural genomics;
           2.05A {Pyrococcus horikoshii}
          Length = 810

 Score = 26.5 bits (58), Expect = 5.4
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 89  QQLFLDKLSEYKSKSTGGKLVDPTPEIERELKADLSKTAKQYGGDGKEDM 138
              F     +  SKS G  +++    IE E  AD+ +       +   D 
Sbjct: 640 VNGFGTLEGQKMSKSKGN-VLNFIDAIE-ENGADVVRLYIMSLAEHDSDF 687


>3hn0_A Nitrate transport protein; ABC transporter, structural genomics,
           joint center for struc genomics, JCSG, protein structure
           initiative; 1.75A {Parabacteroides distasonis}
          Length = 283

 Score = 25.6 bits (56), Expect = 7.9
 Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 41  LDKLSEYKSKSAMLTPQLFVCVRKNVSQNLTRNLATSYVALKNASDPIQQLFLDKLSEYK 100
             K   Y  ++     +  +  +  ++          Y++   A D +   FL  + +Y+
Sbjct: 207 CQKAVRYPKETIHSLEEHGIFAQGALTPKSIERCKIYYLSAIEAKDAVMG-FLRLIEQYE 265

Query: 101 SKSTGGKLVD 110
            K+ GG+L D
Sbjct: 266 PKAVGGRLPD 275


  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    0.128    0.354 

Gapped
Lambda     K      H
   0.267   0.0707    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,122,429
Number of extensions: 107386
Number of successful extensions: 138
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 9
Length of query: 158
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 72
Effective length of database: 4,300,587
Effective search space: 309642264
Effective search space used: 309642264
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: 53 (24.2 bits)