RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12164
         (57 letters)



>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation
           factor 1; structural genomics consortium, GTPase
           activation; HET: GDP; 2.80A {Homo sapiens}
          Length = 329

 Score = 43.3 bits (102), Expect = 4e-07
 Identities = 18/57 (31%), Positives = 30/57 (52%)

Query: 1   MTIQQKYNTKAAALYRDKIATLARGEEWDQSKSSANSYVSSNISSSSTGSRLNSSII 57
            ++Q+KYN++AAAL+RDK+  LA G EW    S A ++             +   ++
Sbjct: 115 WSLQEKYNSRAAALFRDKVVALAEGREWSLESSPAQNWTPPQPRGLFGKKEMRILMV 171


>3dwd_A ADP-ribosylation factor GTPase-activating protein; GAP, structural
           genomics consorti ER-golgi transport, golgi apparatus,
           GTPase activation; 2.40A {Homo sapiens}
          Length = 147

 Score = 39.8 bits (93), Expect = 5e-06
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 1   MTIQQKYNTKAAALYRDKIATLARGEEWDQS 31
            ++Q+KYN++AAAL+RDK+  LA G EW   
Sbjct: 116 WSLQEKYNSRAAALFRDKVVALAEGREWSLE 146


>3sub_A ADP-ribosylation factor GTPase-activating protein; protein
           trafficking, hydrolase AC; 2.40A {Plasmodium falciparum
           3D7}
          Length = 163

 Score = 37.2 bits (86), Expect = 4e-05
 Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 6/61 (9%)

Query: 1   MTIQQKYNTKAAALYRDKIATLARGEEW------DQSKSSANSYVSSNISSSSTGSRLNS 54
              ++KY TKAA  YR  + ++    +       D+ KS  N   + N++ ++     N 
Sbjct: 98  FIPERKYRTKAADHYRKILRSIVHNVDPPAPLPLDEGKSLINYGRNENVNENNKNQYSNE 157

Query: 55  S 55
            
Sbjct: 158 E 158


>2crw_A ARF GAP 3, ADP-ribosylation factor GTPase-activating protein 3;
           arfgap domain, structural genomics, NPPSFA; NMR {Homo
           sapiens}
          Length = 149

 Score = 34.6 bits (79), Expect = 4e-04
 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 5/49 (10%)

Query: 1   MTIQQKYNTKAAALYRDKIATLARGEEWDQSKSSANSYVSSNISSSSTG 49
                KYN++AA LYR+KI +LA               +  + S  S+G
Sbjct: 106 NDTNAKYNSRAAQLYREKIKSLASQATRKHGTD-----LWLDSSGPSSG 149


>2p57_A GTPase-activating protein ZNF289; zinc finger, GAP, structural
           genomics, structural genomics consortium, SGC, metal
           binding protein; 1.80A {Homo sapiens}
          Length = 144

 Score = 31.1 bits (70), Expect = 0.008
 Identities = 10/27 (37%), Positives = 14/27 (51%)

Query: 1   MTIQQKYNTKAAALYRDKIATLARGEE 27
                KYN++AA +YR+KI  L     
Sbjct: 114 NDANTKYNSRAAQMYREKIRQLGSAAL 140


>2owa_A Arfgap-like finger domain containing protein; zinc finger protein,
           cysteine-rich motif, GTPase activation; 2.00A
           {Cryptosporidium parvum iowa II}
          Length = 138

 Score = 24.8 bits (54), Expect = 1.4
 Identities = 1/22 (4%), Positives = 8/22 (36%)

Query: 2   TIQQKYNTKAAALYRDKIATLA 23
             ++  ++     Y+  + +  
Sbjct: 115 KTKEYASSICGRQYKQILDSEI 136


>1jxh_A Phosphomethylpyrimidine kinase; THID, ribokinase family,
           phophorylation, transferase; 2.30A {Salmonella
           typhimurium} SCOP: c.72.1.2 PDB: 1jxi_A*
          Length = 288

 Score = 24.4 bits (54), Expect = 2.5
 Identities = 5/29 (17%), Positives = 16/29 (55%), Gaps = 1/29 (3%)

Query: 19  IAT-LARGEEWDQSKSSANSYVSSNISSS 46
           +A    R   W ++ + A +++S+ ++ +
Sbjct: 241 LAALRPRHRSWGETVNEAKAWLSAALAQA 269


>3qan_A 1-pyrroline-5-carboxylate dehydrogenase 1; proline oxidation, redox
           control, apoptosis, NAD binding, oxidoreductase,
           PSI-biology; 1.95A {Bacillus halodurans} PDB: 3rjl_A
          Length = 538

 Score = 24.1 bits (53), Expect = 3.0
 Identities = 6/30 (20%), Positives = 11/30 (36%)

Query: 10  KAAALYRDKIATLARGEEWDQSKSSANSYV 39
           KAAA+ R +    +     +  K    +  
Sbjct: 104 KAAAIIRRRKHEFSAWLVHEAGKPWKEADA 133


>3rm5_A Hydroxymethylpyrimidine/phosphomethylpyrimidine K THI20; HMP kinase
           (THID), thiaminase II, transferase; 2.68A {Saccharomyces
           cerevisiae}
          Length = 550

 Score = 23.9 bits (52), Expect = 3.0
 Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 1/29 (3%)

Query: 19  IAT-LARGEEWDQSKSSANSYVSSNISSS 46
           IA+ LARG    QS      YV + ++  
Sbjct: 248 IASNLARGYSLPQSVYGGIEYVQNAVAIG 276


  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
   0.302    0.113    0.287 

Gapped
Lambda     K      H
   0.267   0.0574    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 686,876
Number of extensions: 22645
Number of successful extensions: 32
Number of sequences better than 10.0: 1
Number of HSP's gapped: 32
Number of HSP's successfully gapped: 10
Length of query: 57
Length of database: 6,701,793
Length adjustment: 29
Effective length of query: 28
Effective length of database: 5,892,084
Effective search space: 164978352
Effective search space used: 164978352
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 51 (23.8 bits)