RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11930
         (274 letters)



>1zxu_A AT5G01750 protein; PFAM PF01167, TULP, structural genomics, protein
           structure initiative, center for eukaryotic structural
           genomics, CESG; 1.70A {Arabidopsis thaliana} SCOP:
           d.23.1.2 PDB: 2q4m_A
          Length = 217

 Score = 43.9 bits (103), Expect = 2e-05
 Identities = 24/205 (11%), Positives = 62/205 (30%), Gaps = 30/205 (14%)

Query: 62  LMVKQKVELLEALIGWETNNKFTVKNAQGQKVFLAVEINDCCTRNCCGPLRPFEMKVLDN 121
           + + +K+  L       T+  F + +  G  +F  V+       +        +  +LD 
Sbjct: 40  MAIVRKMMSL-------TDGNFVITDVNGNLLFK-VKEPVFGLHD--------KRVLLDG 83

Query: 122 YKNEVIHFERPLACDSCWFPCCLQSLNVFSPPGALI--GSIEQEWSLLTPIFVIKNGAGD 179
               V+     +      +                +   S+ Q  + L            
Sbjct: 84  SGTPVVTLREKMVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVFLGHNKDEKR 143

Query: 180 IVLRIEGPICRYSMCGGDVDFKILSRDGQTEVGRISKQWSGLLREAFTDADYFGISFPGD 239
              R++G     S         + + +    V ++ ++ +  ++  F   D F ++   +
Sbjct: 144 CDFRVKGSWLERS-------CVVYAGESDAIVAQMHRKHT--VQSVFLGKDNFSVTVYPN 194

Query: 240 LDVRMKAVMLGACFLIDAMFYEKAG 264
           +D    A +     ++D +  E   
Sbjct: 195 VDY---AFIASLVVILDDVNREDRA 216


>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 = 31.1 bits (69), Expect = 0.22
 Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 5/23 (21%)

Query: 144 LQ-SLNVFSP---PG-ALIGSIE 161
           LQ SL +++    P  A+  ++E
Sbjct: 25  LQASLKLYADDSAPALAIKATME 47


>3m03_A ORC6, origin recognition complex subunit 6; helix turn helix, DNA
           binding protein, origin recognition CO DNA replication;
           HET: MES; 2.50A {Homo sapiens}
          Length = 95

 Score = 27.7 bits (61), Expect = 1.4
 Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 7/54 (12%)

Query: 97  VEINDCCTRNCCGPLRPFEMKVLDNYKNEV-------IHFERPLACDSCWFPCC 143
           + I D   +  C        K+L +Y++ +       +   RPL   +     C
Sbjct: 4   IGIRDLAVQFSCIEAVNMASKILKSYESSLPQTQQVDLDLSRPLFTSAALLSAC 57


>3h99_A Methionyl-tRNA synthetase; rossmann fold, aminoacyl-tRNA
           synthetase, ATP-binding, ligas binding,
           nucleotide-binding, protein biosynthesis; HET: CIT;
           1.40A {Escherichia coli} PDB: 3h97_A* 3h9b_A* 1f4l_A
           3h9c_A* 1pfv_A* 1pfu_A 1p7p_A* 1pfw_A* 1pfy_A* 1pg0_A*
           1pg2_A* 1qqt_A 1mea_A 1med_A
          Length = 560

 Score = 29.1 bits (66), Expect = 1.7
 Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 3/40 (7%)

Query: 202 ILSRDGQTEVGRISKQW--SGLLREAFT-DADYFGISFPG 238
             S   Q +V    ++W  SGL +   + DA YFG   P 
Sbjct: 218 TRSGALQEQVANKMQEWFESGLQQWDISRDAPYFGFEIPN 257


>3phh_A Shikimate dehydrogenase; shikimate pathway, helicobacter PYL
           oxidoreductase, alpha/beta domain, rossmann fold; HET:
           SKM; 1.42A {Helicobacter pylori} PDB: 3phg_A* 3phi_A*
           3phj_A*
          Length = 269

 Score = 26.4 bits (59), Expect = 9.6
 Identities = 7/22 (31%), Positives = 9/22 (40%), Gaps = 3/22 (13%)

Query: 253 FLIDAMFYEKAGNRESDGIGML 274
           FL  A   ++      DG  ML
Sbjct: 216 FLSLA---KELKTPFQDGKDML 234


  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
   0.322    0.140    0.452 

Gapped
Lambda     K      H
   0.267   0.0811    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,367,474
Number of extensions: 261261
Number of successful extensions: 531
Number of sequences better than 10.0: 1
Number of HSP's gapped: 530
Number of HSP's successfully gapped: 12
Length of query: 274
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 182
Effective length of database: 4,133,061
Effective search space: 752217102
Effective search space used: 752217102
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 (21.9 bits)
S2: 56 (25.2 bits)