RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4860
         (182 letters)



>3ghm_A A disintegrin and metalloproteinase with thrombos motifs 13;
           thrombospondin type-1 motif, beta sandwich, hydrolase;
           HET: NAG FUC BGC; 2.60A {Homo sapiens} PDB: 3ghn_A*
          Length = 410

 Score =  120 bits (301), Expect = 5e-33
 Identities = 40/155 (25%), Positives = 63/155 (40%), Gaps = 15/155 (9%)

Query: 3   CPVQQVGCDGVVGSEKSLDRCGVCGGDNSSCRLVSGLFTRPLLPGGYNLITQIPRGACNL 62
              +  GCDG + S++  DRC VCGGDNS+C    G FT       Y     +     ++
Sbjct: 241 GSCRTFGCDGRMDSQQVWDRCQVCGGDNSTCSPRKGSFTAG-RAREYVTFLTVTPNLTSV 299

Query: 63  TVSEMKHTTNFLALRYRNGSYILNGDWAINWSGDYE--GAGTKFTYRR----GSNNVGQY 116
            ++  +     LA+R   G Y++ G  +I+ +  Y       +  YR           + 
Sbjct: 300 YIANHRPLFTHLAVR-IGGRYVVAGKMSISPNTTYPSLLEDGRVEYRVALTEDRLPRLEE 358

Query: 117 LSSPGPLTEPLDLMVVFQ-------QTNPGIKYEY 144
           +   GPL E  D+ V  +        T P I + Y
Sbjct: 359 IRIWGPLQEDADIQVYRRYGEEYGNLTRPDITFTY 393


>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 = 29.9 bits (66), Expect = 0.30
 Identities = 6/30 (20%), Positives = 12/30 (40%), Gaps = 9/30 (30%)

Query: 141 KYEYQLSMESPNEAFLPA---NSNLGPEIE 167
           K +  L + + + A  PA    +     +E
Sbjct: 24  KLQASLKLYADDSA--PALAIKAT----ME 47


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 27.9 bits (61), Expect = 2.1
 Identities = 24/109 (22%), Positives = 38/109 (34%), Gaps = 26/109 (23%)

Query: 4   PVQQVGCDGVVGSEKS---LDRCGVCGGDNSSCRLVSGLF---------TRPLLPGGYNL 51
           P + V  DGV+GS K+   LD   VC      C++   +F            +L     L
Sbjct: 149 PAKNVLIDGVLGSGKTWVALD---VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205

Query: 52  ITQI-------PRGACN--LTVSEMKHT-TNFLALR-YRNGSYILNGDW 89
           + QI          + N  L +  ++      L  + Y N   +L    
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254


>3i3v_A Probable secreted solute-binding lipoprotein; transporter, PSI-II,
           structural genomics, protein structure initiative; 2.30A
           {Streptomyces coelicolor}
          Length = 405

 Score = 27.1 bits (60), Expect = 3.9
 Identities = 8/53 (15%), Positives = 23/53 (43%), Gaps = 2/53 (3%)

Query: 116 YLSSPGPLTEPLDLMV-VFQQTNPGIKYEYQLSMESPNEAFLPA-NSNLGPEI 166
            L +  P +      V  F++ NPG+K +  ++ +   + +  +  +    ++
Sbjct: 15  QLGTTAPGSPTYLAAVDRFREENPGVKIKNLVNGDDLAQVYETSRLARKEADV 67


>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
          transcription factor, DNA-binding, DNA-directed RNA
          polymerase; 4.30A {Saccharomyces cerevisiae}
          Length = 197

 Score = 26.2 bits (57), Expect = 5.1
 Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 9/32 (28%)

Query: 1  MTCPVQQVGCDG----VVGSEKSLDR-CGVCG 27
          +TCP     C      +V      D  C +CG
Sbjct: 22 LTCPE----CKVYPPKIVERFSEGDVVCALCG 49


>2yeq_A Apased, PHOD, alkaline phosphatase D; hydrolase, phosphodiesterase;
           HET: PE5; 1.93A {Bacillus subtilis}
          Length = 527

 Score = 26.3 bits (57), Expect = 6.6
 Identities = 16/78 (20%), Positives = 33/78 (42%), Gaps = 1/78 (1%)

Query: 66  EMKHTTNFLALRYRNGSYILNGDWAINWSGDYEGAGTKFTYRR-GSNNVGQYLSSPGPLT 124
           + +   NF+  +  N   +L GD   +W+ +      K + +  G+  VG  ++S G   
Sbjct: 358 QRERVINFIKSKNLNNVVVLTGDVHASWASNLHVDFEKTSSKIFGAEFVGTSITSGGNGA 417

Query: 125 EPLDLMVVFQQTNPGIKY 142
           +         + NP I++
Sbjct: 418 DKRADTDQILKENPHIQF 435


>1l8n_A Alpha-D-glucuronidase; hydrolase; HET: GCW XYP; 1.50A {Geobacillus
           stearothermophilus} SCOP: c.1.8.10 d.92.2.2 PDB: 1k9d_A*
           1mqq_A* 1mqp_A 1mqr_A* 1k9f_A* 1k9e_A*
          Length = 679

 Score = 26.0 bits (57), Expect = 9.8
 Identities = 8/31 (25%), Positives = 10/31 (32%)

Query: 86  NGDWAINWSGDYEGAGTKFTYRRGSNNVGQY 116
              W      D +G G   T   G+    QY
Sbjct: 537 YSHWGTYHYADRDGIGVDRTVATGTGYTAQY 567


  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
   0.317    0.137    0.426 

Gapped
Lambda     K      H
   0.267   0.0759    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,744,870
Number of extensions: 154669
Number of successful extensions: 367
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 11
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.5 bits)