RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14478
         (206 letters)



>3rvy_A ION transport protein; tetrameric ION channel, voltage-gated
           sodium-selective ION C membrane, metal transport; HET:
           PX4; 2.70A {Arcobacter butzleri} PDB: 3rvz_A* 3rw0_A*
          Length = 285

 Score = 31.6 bits (72), Expect = 0.14
 Identities = 20/144 (13%), Positives = 54/144 (37%), Gaps = 15/144 (10%)

Query: 11  LIFAVPGSWFLLMFFAGAIRLTGPFVTMAFYFLY-------KGFPGVKTSLYSSYLSTWM 63
           L+ AVP    ++      I      + +   F Y       + F       + +   ++ 
Sbjct: 127 LVTAVPQMRKIVSALISVIPGMLSVIALMTLFFYIFAIMATQLFGERFPEWFGTLGESFY 186

Query: 64  ALFQITLGD-----YNYPELSYTVYPTMSKIVFTVFMVLVPILLLNMLIAMMGNTYAHVI 118
            LFQ+   +        P +    Y   + + F  F+ +V  +++N+++A+  +  A + 
Sbjct: 187 TLFQVMTLESWSMGIVRPLMEVYPY---AWVFFIPFIFVVTFVMINLVVAICVDAMAILN 243

Query: 119 EQSEKEWMKQWAKIVVALERAVSQ 142
           ++ E+  + +       +   + +
Sbjct: 244 QKEEQHIIDEVQSHEDNINNEIIK 267


>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 = 30.0 bits (67), Expect = 0.67
 Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 10/70 (14%)

Query: 142 QEDCHRYLQEYSIKLGPGDEPGTEQRGVLVIK------SKTAPEEPAPKFEAFSAALDVM 195
           QE  ++ L E +      DEP T     LV K      S   P +     +  +  L   
Sbjct: 34  QEQFNKILPEPTEGFAADDEPTTPAE--LVGKFLGYVSSLVEPSKVGQFDQVLNLCLT-- 89

Query: 196 AFTHDIDLGN 205
            F +    GN
Sbjct: 90  EFENCYLEGN 99


>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium
           channel, sodium selective, gated ION channel; HET: BNG
           PX4; 3.05A {Alpha proteobacterium HIMB114}
          Length = 229

 Score = 28.8 bits (65), Expect = 1.2
 Identities = 20/107 (18%), Positives = 41/107 (38%), Gaps = 10/107 (9%)

Query: 11  LIFAVPGSWFLLMFFAGAIRLTGPFVTMAFYFLY-------KGFPGVKTSLYSSYLSTWM 63
           LI  +P    ++     ++R       + F  LY         F     S +     + +
Sbjct: 112 LISVIPELKQIIEAILESVRRVFFVSLLLFIILYIYATMGAILFGNDDPSRWGDLGISLI 171

Query: 64  ALFQITLGDYNYPELSYTVY--PTMSKIVFTVFMVLVPILLLNMLIA 108
            LFQ+     ++  +   +      S + F  F+++  I +LN++IA
Sbjct: 172 TLFQVLTLS-SWETVMLPMQEIYWWSWVYFFSFIIICSITILNLVIA 217


>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 = 27.2 bits (59), Expect = 3.2
 Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 6/29 (20%)

Query: 4  KKTEEAILIFAVPGSWFLLMFFAGAIRLT 32
          KK + ++ ++A   S   L     AI+ T
Sbjct: 23 KKLQASLKLYA-DDSAPAL-----AIKAT 45


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 27.0 bits (59), Expect = 3.7
 Identities = 13/61 (21%), Positives = 19/61 (31%), Gaps = 19/61 (31%)

Query: 120 QSEKEWMKQWAKIVVALERAVSQEDCHRYLQEYSIKLGPGDEPGTEQRGVLVIKSKTAPE 179
             E E +++W +     E+        R LQE        D            K+K   E
Sbjct: 81  TQEPESIRKWRE-----EQRK------R-LQE---L----DAASKVMEQEWREKAKKDLE 121

Query: 180 E 180
           E
Sbjct: 122 E 122


>3nkh_A Integrase; alpha-fold, MRSA protein, structural genomics, PSI-2,
           protei structure initiative; 2.50A {Staphylococcus
           aureus subsp}
          Length = 244

 Score = 26.5 bits (59), Expect = 6.6
 Identities = 7/21 (33%), Positives = 14/21 (66%)

Query: 112 NTYAHVIEQSEKEWMKQWAKI 132
           + Y+HV EQ +K+ M +  ++
Sbjct: 221 SIYSHVTEQMDKDMMNKLEQV 241


>1no7_A Major capsid protein; novel fold, alpha plus beta, viral capsid
           protein, folding nucleus, viral protein; 2.90A {Human
           herpesvirus 1} SCOP: e.48.1.1
          Length = 604

 Score = 26.2 bits (57), Expect = 9.1
 Identities = 6/20 (30%), Positives = 10/20 (50%)

Query: 63  MALFQITLGDYNYPELSYTV 82
           +A  +    D NYP + Y +
Sbjct: 161 IAAVRGAFDDRNYPAVFYLL 180


>3ayf_A Nitric oxide reductase; oxidoreductase; HET: HEM BOG EPE LOP; 2.50A
           {Geobacillus stearothermophilus} PDB: 3ayg_A*
          Length = 800

 Score = 26.1 bits (57), Expect = 10.0
 Identities = 16/111 (14%), Positives = 36/111 (32%), Gaps = 6/111 (5%)

Query: 19  WFLLMFFAGAIRLTGPFVTMAFYFLYKGFPGVKTSLYSSYLSTWMALFQITLGDYNYPEL 78
           W+++  +   I      V + F  +       K+++ + Y    + L    +G  ++   
Sbjct: 504 WWIIHLWVEGIFEVFAVVVIGFLLVQLRLVTKKSTVRALYFQFTILLGSGVIGIGHH--Y 561

Query: 79  SYTVYPTMSKIVFTVFMVLVPILLLNMLIAMMGNTYAHVIEQSEKEWMKQW 129
            Y   P +   +  VF  L  I     L  ++   Y       +      +
Sbjct: 562 YYNGSPEVWIALGAVFSALEVIP----LTLLILEAYEQYKMMRDGGANFPY 608


  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    0.137    0.416 

Gapped
Lambda     K      H
   0.267   0.0726    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,224,701
Number of extensions: 181726
Number of successful extensions: 362
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 12
Length of query: 206
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 117
Effective length of database: 4,216,824
Effective search space: 493368408
Effective search space used: 493368408
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.0 bits)