RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= 537021.9.peg.816_1
         (97 letters)



>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics,
           PSI-2, protein structure initiative, midwest center for
           structural genomics; HET: DNA; 2.30A {Chlorobium tepidum
           tls} (A:)
          Length = 126

 Score =  104 bits (260), Expect = 5e-24
 Identities = 36/97 (37%), Positives = 57/97 (58%)

Query: 1   LFLDKHNILIADEVQSRGTIDHVPVYIREIVQRCLELSATSIILVHNHPSGNPNPSDADI 60
           LFL   N ++  E  + GT+    ++ REI +  +  SA SIILVHNHPSG+  PS+AD 
Sbjct: 30  LFLSTKNQILRHETITIGTLTASLIHPREIFKAAIRESAHSIILVHNHPSGDVQPSNADK 89

Query: 61  NMTQNIITTLNPLNIIVHDHIIIGKDAFVSFKGLRII 97
            +T  +    + L I + DH+I+G + + SF+   ++
Sbjct: 90  QVTSILKKAGDLLQIELLDHVIVGNNDWFSFRDHALL 126


>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit,
           ribonucleoprotein, RNA-binding, rRNA-binding,
           tRNA-binding, methylation; 2.91A {Deinococcus
           radiodurans} (C:)
          Length = 205

 Score = 27.6 bits (61), Expect = 0.53
 Identities = 10/64 (15%), Positives = 25/64 (39%), Gaps = 4/64 (6%)

Query: 28  REIVQRCLELSATSIILVHNHPSGNPNPSDADINMTQ-NIIT--TLNPLNIIVHDHIIIG 84
           +  +    +        V    + + N   A  N++  +++    +N  +I+ HD ++I 
Sbjct: 131 KNFISWAKQNGLDGTEKVL-LVTDDENTRRAARNVSWVSVLPVAGVNVYDILRHDRLVID 189

Query: 85  KDAF 88
             A 
Sbjct: 190 AAAL 193


>2j01_F 50S ribosomal protein L4; ribosome, tRNA, paromomycin, mRNA,
           translation; 2.8A {Thermus thermophilus} (F:)
          Length = 210

 Score = 26.5 bits (58), Expect = 1.2
 Identities = 9/45 (20%), Positives = 19/45 (42%), Gaps = 3/45 (6%)

Query: 47  NHPSGNPNPSDADINMTQ-NIIT--TLNPLNIIVHDHIIIGKDAF 88
              +GN     A  N+     +    LN  +I+  + +++  DA+
Sbjct: 155 LLVTGNELVRRAARNLPWVVTLAPEGLNVYDIVRTERLVMDLDAW 199


>1oi0_A AF2198, hypothetical protein AF2198; proteasome,
           deubiquitination, archaea, hydrolase; 1.5A
           {Archaeoglobus fulgidus} (A:)
          Length = 124

 Score = 26.5 bits (58), Expect = 1.3
 Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 27  IREIVQRCLELSATSIILVHNHPSGNPNPSDADINMTQNIITTLNPLNIIVHDHIIIG 84
              I    L +       VH+HPS +  PS+ D+++     T     +IIV       
Sbjct: 51  SAVIHLDMLPIGMKVFGTVHSHPSPSCRPSEEDLSL----FTRFGKYHIIVCYPYDEN 104


>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural
          genomics, PSI-2, protein structure initiative; NMR
          {Salinibacter ruber dsm 13855} (A:)
          Length = 153

 Score = 25.4 bits (55), Expect = 2.6
 Identities = 8/42 (19%), Positives = 13/42 (30%)

Query: 21 DHVPVYIREIVQRCLELSATSIILVHNHPSGNPNPSDADINM 62
          +      R       E     + + H+HP     PS  D+  
Sbjct: 58 ELTADDYRAADAAAQEQGLDVVGVYHSHPDHPARPSATDLEE 99


>3i1n_E 50S ribosomal protein L4; ribosome structure, protein-RNA
          complex, acetylation, ribonucleoprotein, ribosomal
          protein, RNA-binding, rRNA- binding, methylation; 3.19A
          {Escherichia coli k-12} PDB: 1p85_C 1p86_C 1vs8_E
          2aw4_E 2awb_E 1vs6_E 2i2v_E 2j28_E 2i2t_E* 2qao_E*
          2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E* 2qbk_E* 2qov_E
          2qox_E 2qoz_E* 2qp1_E* ... (E:1-19,E:117-201)
          Length = 104

 Score = 25.5 bits (56), Expect = 2.8
 Identities = 5/19 (26%), Positives = 13/19 (68%)

Query: 70 LNPLNIIVHDHIIIGKDAF 88
          ++P+++I  D +++  DA 
Sbjct: 78 IDPVSLIAFDKVVMTADAV 96


>3bbo_G Ribosomal protein L4; large ribosomal subunit, spinach
          chloroplast ribosome, ribonucleoprotein particle,
          macromolecular complex; 9.40A {Spinacea oleracea}
          (G:172-293)
          Length = 122

 Score = 24.0 bits (52), Expect = 8.1
 Identities = 2/19 (10%), Positives = 9/19 (47%)

Query: 70 LNPLNIIVHDHIIIGKDAF 88
          LN  +++  + ++  +   
Sbjct: 63 LNLFDVLNAEKLVFTEGTI 81


>3chv_A Prokaryotic domain of unknown function (DUF849) with A TIM
          barrel fold; YP_164873.1; HET: MSE; 1.45A {Silicibacter
          pomeroyi dss-3} PDB: 3fa5_A (A:)
          Length = 284

 Score = 23.6 bits (51), Expect = 8.8
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 10/47 (21%)

Query: 22 HVPVYIREIVQ---RCLELSATSIILVHNH---PSGNPNPSDADINM 62
           VP+ + E V+      E  A    + H H     G P+ SD D   
Sbjct: 28 AVPITVSEQVESTQEAFEAGAA---IAHCHVRNDDGTPS-SDPDRFA 70


>1gte_A Dihydropyrimidine dehydrogenase; electron transfer, flavin,
           iron-sulfur clusters, pyrimidine catabolism,
           5-fluorouracil degradation, oxidoreductase; HET: FMN
           FAD; 1.65A {Sus scrofa} (A:54-177,A:822-873)
          Length = 176

 Score = 23.7 bits (51), Expect = 9.6
 Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 5/57 (8%)

Query: 17  RGTIDHVPVYIREIVQRCLELSATSIILVHNHPSGNPNPSDADINMTQNIITTLNPL 73
               +   + I       L+  A+ +    N P         D  + Q+  T L  L
Sbjct: 89  LYATEEGSINIGG-----LQQFASEVFKAMNIPQIRNPCLPQDFTVIQDYCTGLKAL 140


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.324    0.142    0.413 

Gapped
Lambda     K      H
   0.267   0.0551    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 751,617
Number of extensions: 29635
Number of successful extensions: 87
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 16
Length of query: 97
Length of database: 4,956,049
Length adjustment: 57
Effective length of query: 40
Effective length of database: 3,029,164
Effective search space: 121166560
Effective search space used: 121166560
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.4 bits)