RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4736
         (98 letters)



>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
            cytoplasmic; motor protein, AAA+ protein, ASCE protein,
            P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
            japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
          Length = 2695

 Score = 94.9 bits (236), Expect = 2e-24
 Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 1/68 (1%)

Query: 31   TEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQYSLNWFINLYVQS-IEGSEKTDQ 89
               + D+    Y  + KHS  +F    +       Y  S+  F++ + +  I+ S +T  
Sbjct: 2210 FFPQFDNLVEEYSIIGKHSVKIFSMLEKFGQFHWFYGISIGQFLSCFKRVFIKKSRETRA 2269

Query: 90   LDKRLKIL 97
               R+  +
Sbjct: 2270 ARTRVDEI 2277


>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
            microtubles, motor protein; HET: ADP SPM; 2.81A
            {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
          Length = 3245

 Score = 90.0 bits (223), Expect = 9e-23
 Identities = 17/70 (24%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 31   TEKEIDDARMMYIPVSKHSSVLFFCCAELSNIDPMYQYSLNWFINLYVQSIEGSEKT--- 87
              +EI +   +Y P++   S ++F   ELS    +YQ+SL  F++++   +  +      
Sbjct: 2390 VMQEISEVSALYNPMALSCSRVYFAMEELSQFH-LYQFSLRAFLDIFYNLLNNNPNLVDK 2448

Query: 88   DQLDKRLKIL 97
               ++RL  L
Sbjct: 2449 KDPNERLVYL 2458


>3ecs_A Translation initiation factor EIF-2B subunit alpha; eukaryotic
           translation initiation factor 2balpha (EIF2balpha);
           2.65A {Homo sapiens}
          Length = 315

 Score = 27.3 bits (61), Expect = 0.72
 Identities = 4/25 (16%), Positives = 10/25 (40%)

Query: 45  VSKHSSVLFFCCAELSNIDPMYQYS 69
            +K  +  F+  AE      ++  +
Sbjct: 218 CAKAQNKPFYVVAESFKFVRLFPLN 242


>3nat_A Uncharacterized protein; alpha-beta half sandwich, structural
          genomics, PSI-2, protei structure initiative; HET: CIT;
          2.92A {Enterococcus faecalis}
          Length = 164

 Score = 26.5 bits (58), Expect = 1.2
 Identities = 9/49 (18%), Positives = 18/49 (36%), Gaps = 9/49 (18%)

Query: 50 SVLFFCCAELSNIDPMYQYSLNW---------FINLYVQSIEGSEKTDQ 89
          ++L +   +L      Y+  L+W          + LY ++ E     D 
Sbjct: 8  TMLTYLEEQLEKHLGDYEVGLDWDRKNHTIEVIVRLYAENNEQVAIDDV 56


>3mzn_A Glucarate dehydratase; lyase, structural genomics, protein
           structure initiative, PS nysgrc; 1.85A {Chromohalobacter
           salexigens} PDB: 3nfu_A
          Length = 450

 Score = 26.4 bits (58), Expect = 1.5
 Identities = 5/32 (15%), Positives = 8/32 (25%)

Query: 22  DTHTGGPSRTEKEIDDARMMYIPVSKHSSVLF 53
           D H           +      +    HS+  F
Sbjct: 311 DCHFWTMQGAVAVGELCNEWGMTWGSHSNNHF 342


>3p0w_A Mandelate racemase/muconate lactonizing protein; structural
           genomics, PSI-2, protein structure initiative; HET: GKR;
           1.71A {Ralstonia pickettii} PDB: 3nxl_A
          Length = 470

 Score = 25.3 bits (55), Expect = 4.2
 Identities = 7/62 (11%), Positives = 11/62 (17%), Gaps = 8/62 (12%)

Query: 19  LCVDTHTGGPSRTEKEIDDARMMYIPVSKHSSVLF--------FCCAELSNIDPMYQYSL 70
              D H      + +         +    HS+  F           A             
Sbjct: 326 PLADPHFWTMQGSVRVAQLCDEWGLTWGSHSNNHFDVSLAMFTHVAAAAPGNITAIDTHW 385

Query: 71  NW 72
            W
Sbjct: 386 IW 387


>3pfr_A Mandelate racemase/muconate lactonizing protein; emolase
           superfamily fold, D-glucarate dehydratase, D-glucara
           isomerase; HET: GKR; 1.90A {Actinobacillus succinogenes}
           PDB: 3n6j_A 3n6h_A*
          Length = 455

 Score = 24.8 bits (54), Expect = 6.5
 Identities = 4/28 (14%), Positives = 7/28 (25%)

Query: 22  DTHTGGPSRTEKEIDDARMMYIPVSKHS 49
           D H    +   +         +    HS
Sbjct: 314 DPHFWTLTGASRVAQLCNEWGLTWGCHS 341


>2azp_A Hypothetical protein PA1268; PA1268,APC5861,sulfur SAD,
          structural genomics, PSI, protein structure initiative;
          2.13A {Pseudomonas aeruginosa}
          Length = 318

 Score = 24.4 bits (52), Expect = 7.4
 Identities = 7/12 (58%), Positives = 10/12 (83%), Gaps = 1/12 (8%)

Query: 20 CVDTHTGG-PSR 30
           +D+HTGG P+R
Sbjct: 8  IIDSHTGGEPTR 19


>1tm0_A Proline racemase; structural genomics, alpha-beta protein THAT
          resembles doubl barrel, in EACH of which AN alpha helix
          is sandwiched, PSI; 2.80A {Brucella melitensis} SCOP:
          d.21.1.3
          Length = 350

 Score = 24.4 bits (52), Expect = 7.7
 Identities = 3/12 (25%), Positives = 3/12 (25%), Gaps = 1/12 (8%)

Query: 20 CVDTHTGG-PSR 30
           V  H  G    
Sbjct: 9  IVGCHAEGEVGD 20


  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    0.136    0.416 

Gapped
Lambda     K      H
   0.267   0.0625    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,376,875
Number of extensions: 63585
Number of successful extensions: 173
Number of sequences better than 10.0: 1
Number of HSP's gapped: 172
Number of HSP's successfully gapped: 13
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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: 40 (21.5 bits)
S2: 51 (23.6 bits)