RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16402
         (77 letters)



>1i4d_A Arfaptin 2, partner of RAC1; coiled coil, G-protein, complex,
          signaling protein; HET: GDP; 2.50A {Homo sapiens} SCOP:
          a.238.1.2 PDB: 1i49_A* 1i4l_A* 1i4t_A*
          Length = 224

 Score = 38.2 bits (88), Expect = 6e-05
 Identities = 6/41 (14%), Positives = 19/41 (46%)

Query: 30 CNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYK 70
           +  L  ++E L  T++ Y+ +++  + +      +L+   
Sbjct: 5  VDLELELQIELLRETKRKYESVLQLGRALTAHLYSLLQTQH 45


>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 = 26.5 bits (57), Expect = 0.70
 Identities = 6/29 (20%), Positives = 12/29 (41%), Gaps = 13/29 (44%)

Query: 35 VKKMEELENTEQMY----------KGLVE 53
          +KK   L+ + ++Y          K  +E
Sbjct: 22 LKK---LQASLKLYADDSAPALAIKATME 47


>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90,
           heat shock protein, ATP-binding, heat shock,
           nucleotide-binding, acetylation; HET: ATP; 3.1A
           {Saccharomyces cerevisiae}
          Length = 677

 Score = 25.1 bits (55), Expect = 2.8
 Identities = 8/40 (20%), Positives = 18/40 (45%), Gaps = 1/40 (2%)

Query: 22  QSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKG 61
             +++     +T  +K  E E   + Y+ L +  K++L  
Sbjct: 522 VDITKDFELEETDEEK-AEREKEIKEYEPLTKALKEILGD 560


>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET:
          MSE; 1.70A {Methylobacterium extorquens} SCOP:
          c.37.1.10 PDB: 2qm7_A*
          Length = 337

 Score = 24.7 bits (54), Expect = 3.3
 Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 5/35 (14%)

Query: 1  MSTTTADALDSLLDDYLQGLNQSLSRAILCNDTLV 35
          MS T  D +D+L +  L G   +L+RAI    TL 
Sbjct: 1  MSATLPD-MDTLRERLLAGDRAALARAI----TLA 30


>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2,
          protein structure initiative, NEW YORK SGX research for
          structural genomics; 1.80A {Escherichia coli} SCOP:
          c.37.1.10
          Length = 341

 Score = 24.4 bits (53), Expect = 4.1
 Identities = 15/67 (22%), Positives = 28/67 (41%), Gaps = 8/67 (11%)

Query: 1  MSTTTADALDSLLDDYLQGLNQSLSRAILCNDTLV--KKMEELENTEQMYKGLVEHCKKV 58
          MS      L   +    QG   +L++A+    TLV  +       + Q+   ++ +C   
Sbjct: 1  MSLINEATLAESIRRLRQGERATLAQAM----TLVESRHPRHQALSTQLLDAIMPYCGNT 56

Query: 59 LKGFLGI 65
          L+  LG+
Sbjct: 57 LR--LGV 61


>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 = 24.4 bits (52), Expect = 4.7
 Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 12/80 (15%)

Query: 5   TADALDSLLDDYLQGLNQSLSRAILCNDTLVKKM--EELE---NTEQMYKGL-VEHCKKV 58
           T D + SLL  YL    Q L R +L  +     +  E +     T   +K +  +    +
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI 358

Query: 59  LKGFLGIL------RVYKGC 72
           ++  L +L      +++   
Sbjct: 359 IESSLNVLEPAEYRKMFDRL 378


>1hr6_A Alpha-MPP, mitochondrial processing peptidase alpha subunit; hxxeh
           zinc-binding motif, hydrolase; HET: EPE; 2.50A
           {Saccharomyces cerevisiae} SCOP: d.185.1.1 d.185.1.1
           PDB: 1hr7_A 1hr8_A* 1hr9_A*
          Length = 475

 Score = 24.2 bits (53), Expect = 6.0
 Identities = 5/35 (14%), Positives = 14/35 (40%), Gaps = 3/35 (8%)

Query: 7   DALDSLLDDYLQGL---NQSLSRAILCNDTLVKKM 38
              + +L + L       ++L   ++C   L+  +
Sbjct: 135 MKPELVLPELLHTAAYSGETLGSPLICPRGLIPSI 169


>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga
           maritima} PDB: 2gaj_A*
          Length = 633

 Score = 24.1 bits (53), Expect = 6.5
 Identities = 6/9 (66%), Positives = 8/9 (88%)

Query: 33  TLVKKMEEL 41
           +LVK+ME L
Sbjct: 449 SLVKEMERL 457


  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
   0.319    0.136    0.387 

Gapped
Lambda     K      H
   0.267   0.0733    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,105,688
Number of extensions: 50021
Number of successful extensions: 122
Number of sequences better than 10.0: 1
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 10
Length of query: 77
Length of database: 6,701,793
Length adjustment: 46
Effective length of query: 31
Effective length of database: 5,417,427
Effective search space: 167940237
Effective search space used: 167940237
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 (21.7 bits)
S2: 51 (23.4 bits)