RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11248
         (227 letters)



>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics,
           PSI-biology, northeast structural genom consortium,
           NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*
          Length = 345

 Score = 64.0 bits (155), Expect = 3e-12
 Identities = 30/138 (21%), Positives = 55/138 (39%), Gaps = 10/138 (7%)

Query: 25  DPIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHIDPPHIFDRPIISLSLF 84
             +P   +S +   L +      +  +   IN Y+PG  I +HID    F+  I+SLSL 
Sbjct: 174 GGLPDICESFLEKWLRK--GYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLG 231

Query: 85  SDSALCFGCKFNFKPIRVSEPVLYLPVQRGCVTLLRDFAANGITHCVRPQDTQYRRAVIL 144
           S+         +FK        + LP  R  + ++   +    TH +  +     +A   
Sbjct: 232 SE------IVMDFKHPDGIAVPVMLP--RRSLLVMTGESRYLWTHGITCRKFDTVQASES 283

Query: 145 LRRVLPHAPRLTLSQTPR 162
           L+  +  +    L+ + R
Sbjct: 284 LKSGIITSDVGDLTLSKR 301


>3i3q_A Alpha-ketoglutarate-dependent dioxygenase ALKB; beta jellyroll, DNA
           damage, DNA repair, iron, M binding, oxidoreductase;
           HET: AKG; 1.40A {Escherichia coli} PDB: 2fd8_A* 2fdg_A*
           2fdh_A* 2fdf_A* 2fdj_A 2fdk_A* 2fdi_A* 3i2o_A* 3i3m_A*
           3i49_A* 3t4h_B* 3t3y_A* 3t4v_A* 3o1t_A* 3o1o_A* 3o1m_A*
           3o1r_A* 3o1s_A* 3o1p_A* 3o1u_A* ...
          Length = 211

 Score = 51.9 bits (124), Expect = 2e-08
 Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 9/109 (8%)

Query: 26  PIPAWIQSLVITKLEQMGVVPPNYINSAVINDYQPGGCIVSHID-PPHIFDRPIISLSLF 84
            +P    +L        G       ++ +IN Y PG  +  H D        PI+S+SL 
Sbjct: 81  AMPQSFHNLCQRAATAAGYPDFQP-DACLINRYAPGAKLSLHQDKDEPDLRAPIVSVSLG 139

Query: 85  SDSALCFGCKFNFKPIRVSEPVLYLPVQRGCVTLLRDFAANGITHCVRP 133
                     F F  ++ ++P+  L ++ G V +     +    H ++P
Sbjct: 140 LP------AIFQFGGLKRNDPLKRLLLEHGDVVVWGG-ESRLFYHGIQP 181


>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 = 47.4 bits (112), Expect = 2e-06
 Identities = 44/271 (16%), Positives = 79/271 (29%), Gaps = 129/271 (47%)

Query: 6   SQLVRKGLGNERLYPEGEVDPIPAWIQ----------------SLVITKLEQMGVVPPNY 49
           S+L+R  L  E+++ +G ++ I  W++                S  +  + Q+     +Y
Sbjct: 196 SELIRTTLDAEKVFTQG-LN-ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLA----HY 249

Query: 50  INSAVINDYQPG----------GC---IVSHIDPPHIFDRPIISLSL----FSDSA---- 88
           + +A +  + PG          G    +V+ +          I+ +     F  S     
Sbjct: 250 VVTAKLLGFTPGELRSYLKGATGHSQGLVTAV---------AIAETDSWESFFVSVRKAI 300

Query: 89  -LCF--GCKFNFKPIRVSE--PVLYLPVQRGCVTLLRDFAANGITH-----CVR------ 132
            + F  G        R  E  P   LP      ++L D   N          +       
Sbjct: 301 TVLFFIGV-------RCYEAYPNTSLP-----PSILEDSLENNEGVPSPMLSISNLTQEQ 348

Query: 133 ------------PQDTQ--------YRRAVI------L------LRRVLPHAP------R 154
                       P   Q         +  V+      L      LR+    AP      R
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA--KAPSGLDQSR 406

Query: 155 LTLSQ-TPRVK--------PYHSLYDVQARE 176
           +  S+   +          P+HS   V A +
Sbjct: 407 IPFSERKLKFSNRFLPVASPFHSHLLVPASD 437


>2rcc_A Ribonucleoside-diphosphate reductase subunit beta; NP_241368.1,
           putative class I ribonucleotide reductase,
           ribonucleotide reductase; HET: MSE PGE PG4; 1.90A
           {Bacillus halodurans c-125}
          Length = 346

 Score = 29.9 bits (68), Expect = 0.60
 Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 11/54 (20%)

Query: 11  KGLGNERLYPEGEVDPIPAWIQSLVITKLEQMGVVPPNYIN--SAVINDYQPGG 62
             LG E+ YPE + +P+  WI++       +         +        Y    
Sbjct: 294 VQLGMEKPYPEIKHNPMK-WIRAYEDVNSGKS--------DFFEQKSRQYAKVS 338


>3mdq_A Exopolyphosphatase; structural genomics, joint center for ST
           genomics, JCSG, protein structure initiative, PSI-2,
           hydrol; HET: MSE; 1.50A {Cytophaga hutchinsonii}
          Length = 315

 Score = 26.8 bits (60), Expect = 5.8
 Identities = 6/51 (11%), Positives = 14/51 (27%), Gaps = 6/51 (11%)

Query: 114 GCVTLLRDFAANGITHCVRPQDTQYRRAVILLRRVL-PHAPRLTLSQTPRV 163
           G   L+  F  +        ++            VL P    +   +  ++
Sbjct: 162 GGQRLIDRFHVHD-----PMREDDRVMMHNYFDEVLVPLEKAINTWRPTQL 207


  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
   0.318    0.137    0.418 

Gapped
Lambda     K      H
   0.267   0.0645    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,440,498
Number of extensions: 197517
Number of successful extensions: 339
Number of sequences better than 10.0: 1
Number of HSP's gapped: 336
Number of HSP's successfully gapped: 7
Length of query: 227
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 137
Effective length of database: 4,188,903
Effective search space: 573879711
Effective search space used: 573879711
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 (21.7 bits)
S2: 55 (25.1 bits)