RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9825
         (280 letters)



>2f93_B Sensory rhodopsin II transducer; menbrane protein complex, signal
           transduction, photocycle ST membrane protein; HET: BOG
           RET; 2.00A {Natronomonas pharaonis} SCOP: f.17.4.1
          Length = 122

 Score = 31.3 bits (70), Expect = 0.12
 Identities = 15/70 (21%), Positives = 27/70 (38%), Gaps = 9/70 (12%)

Query: 101 SACLVPVLVCATALVVNF-IAMYYHASRAIPFGT--------MVAVACICLFIILPLTLV 151
           +  +  V +   AL V F    Y   + A   G         + A+  + + + + L LV
Sbjct: 18  TGKMGAVFIFVGALTVLFGAIAYGEVTAAAATGDAAAVQEAAVSAILGLIILLGINLGLV 77

Query: 152 GAVLGRNLSG 161
            A LG + + 
Sbjct: 78  AATLGGDTAA 87


>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 = 30.8 bits (69), Expect = 0.57
 Identities = 21/94 (22%), Positives = 27/94 (28%), Gaps = 30/94 (31%)

Query: 64  LSTA------IFV-----YALTSPVNGYAGGALYSRLGGRAWIRHCLLSACLVPVLVCAT 112
           L +       I V     Y +T+ + G+  G L S L G                   + 
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG---------------ATGHSQ 275

Query: 113 ALVV-NFIAMYYHASRAIPFGTMVAVACICLFII 145
            LV    IA          F   V  A   LF I
Sbjct: 276 GLVTAVAIAE---TDSWESFFVSVRKAITVLFFI 306



 Score = 27.3 bits (60), Expect = 7.2
 Identities = 26/157 (16%), Positives = 45/157 (28%), Gaps = 72/157 (45%)

Query: 56   FKTKRGSLLST-----AIFV--YALTS--------PVNGY-AGGALYSRLGGRAWIRHCL 99
            F++++G L +T     A+ +   A           P +   AG              H L
Sbjct: 1719 FRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAG--------------HSL 1764

Query: 100  --LSACLVPVLVC-ATAL-------VVNF--IAMYYHASRAIPFGT-------MVAVACI 140
               +A     L   A  +       VV +  + M      A+P          M+A+   
Sbjct: 1765 GEYAA-----LASLADVMSIESLVEVVFYRGMTMQ----VAVPRDELGRSNYGMIAINPG 1815

Query: 141  CLFIILPLTLVGAVLGR--------------NLSGQQ 163
             +        +  V+ R              N+  QQ
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ 1852


>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
           protein, P-type ATPase, active transport, cryo-electron
           microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
          Length = 920

 Score = 30.0 bits (68), Expect = 1.1
 Identities = 22/142 (15%), Positives = 39/142 (27%), Gaps = 33/142 (23%)

Query: 170 NAVPRPIPEKKWFMEPL--VIILLGGILPFGSI--FIEMYFIFTSFWAYKIYYVYGFMLL 225
           NA     P K W +  L  + +LLG +L  G+      MY    +    + +     +L 
Sbjct: 740 NAPYSQTPVK-WNLPKLWGMSVLLGVVLAVGTWITVTTMYAQGENGGIVQNFGNMDEVLF 798

Query: 226 VFLIL----------------------------MIVTVCVTIVCTYFLLNAEDYRWQWTS 257
           + + L                             +V +  T    +      D       
Sbjct: 799 LQISLTENWLIFITRANGPFWSSIPSWQLSGAIFLVDILATCFTIWGWFEHSDTSIVAVV 858

Query: 258 FLAAYSTSFYVYMYSFYYFFFK 279
            +  +S   +  M   YY    
Sbjct: 859 RIWIFSFGIFCIMGGVYYILQD 880


>3ce2_A Putative peptidase; structural genomics, unknown function, P
           protein structure initiative; 2.60A {Chlamydophila
           abortus}
          Length = 618

 Score = 29.3 bits (66), Expect = 1.6
 Identities = 8/43 (18%), Positives = 13/43 (30%), Gaps = 10/43 (23%)

Query: 27  EDYRWQWTSFLAAYSTSFYVYMYSFYYFFFKTKRGSLLSTAIF 69
                +W      Y  +FYVY Y+          G + +    
Sbjct: 517 VLSNIEWARIPHFYY-NFYVYQYAT---------GIIAALCFL 549



 Score = 27.4 bits (61), Expect = 6.8
 Identities = 7/25 (28%), Positives = 10/25 (40%), Gaps = 1/25 (4%)

Query: 249 EDYRWQWTSFLAAYSTSFYVYMYSF 273
                +W      Y  +FYVY Y+ 
Sbjct: 517 VLSNIEWARIPHFYY-NFYVYQYAT 540


>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
           protein ST initiative; 2.50A {Enterococcus faecium}
          Length = 587

 Score = 28.9 bits (65), Expect = 2.0
 Identities = 8/43 (18%), Positives = 19/43 (44%), Gaps = 10/43 (23%)

Query: 27  EDYRWQWTSFLAAYSTSFYVYMYSFYYFFFKTKRGSLLSTAIF 69
            + +++W+     Y  ++YV+ YS          G   ++A+ 
Sbjct: 484 PEIKFEWSRIPHFYY-NYYVFQYST---------GFSAASALA 516



 Score = 26.9 bits (60), Expect = 8.1
 Identities = 6/25 (24%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 249 EDYRWQWTSFLAAYSTSFYVYMYSF 273
            + +++W+     Y  ++YV+ YS 
Sbjct: 484 PEIKFEWSRIPHFYY-NYYVFQYST 507


>3aqp_A Probable secdf protein-export membrane protein; translocon, cell
           membrane, MEM protein transport, translocation,
           transmembrane, transport; 3.30A {Thermus thermophilus}
           PDB: 2rrn_A
          Length = 741

 Score = 27.8 bits (62), Expect = 4.9
 Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 111 ATALVVNFIAMYYHASRAIPFGTMVAVACIC--LFIILPLTLVGAVL 155
            T  +   I  YY        G + ++  +     I+  L+ +GA L
Sbjct: 281 GTLAIFLLIFAYYG----PHLGLVASLGLLYTSALILGLLSGLGATL 323


  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
   0.336    0.146    0.487 

Gapped
Lambda     K      H
   0.267   0.0806    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,450,997
Number of extensions: 258337
Number of successful extensions: 865
Number of sequences better than 10.0: 1
Number of HSP's gapped: 856
Number of HSP's successfully gapped: 33
Length of query: 280
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 188
Effective length of database: 4,133,061
Effective search space: 777015468
Effective search space used: 777015468
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 57 (25.6 bits)