RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= 537021.9.peg.1140_1
         (90 letters)



>3nk6_A 23S rRNA methyltransferase; nosiheptide, nosiheptide-resistance
          methyltransferase, 23S R methyltransferase; 2.00A
          {Streptomyces actuosus} PDB: 3nk7_A* 3gyq_A*
          Length = 277

 Score = 25.7 bits (56), Expect = 2.6
 Identities = 5/38 (13%), Positives = 14/38 (36%), Gaps = 5/38 (13%)

Query: 24 SKQDCLISQFKLFEKHYREQQK-----GVNEILDILKS 56
          +  D  + +     KH R   K         +++ +++
Sbjct: 12 NASDPAVQRIIDVTKHSRASIKTTLIEDTEPLMECIRA 49


>1un0_C Nucleoporin NUP2; nuclear import, armadillo repeat, NLS release,
          karyopherin recycling; 2.6A {Saccharomyces cerevisiae}
          PDB: 2c1t_C
          Length = 51

 Score = 25.6 bits (56), Expect = 2.9
 Identities = 7/15 (46%), Positives = 8/15 (53%)

Query: 1  MTKRQEDHYITREEF 15
          M KR  D  I RE +
Sbjct: 1  MAKRVADAQIQRETY 15


>2jul_A Calsenilin; EF-hand, calcium, LXXLL, DNA binding protein, dimer,
           alternative splicing, apoptosis, cytoplasm, endoplasmic
           reticulum, golgi apparatus; NMR {Mus musculus}
          Length = 256

 Score = 25.4 bits (55), Expect = 3.3
 Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 4/31 (12%)

Query: 7   DHYITREEFIEFCTNSNSKQDCLISQFKLFE 37
           D  +T +EF+E C     K + +++  +LFE
Sbjct: 227 DGVVTIDEFLETC----QKDENIMNSMQLFE 253


>2ggz_A Guanylyl cyclase-activating protein 3; EF hand, guanylate cyclase
           activating protein, GCAP, GCAP3, GCAP-3, lyase
           activator; 3.00A {Homo sapiens}
          Length = 211

 Score = 25.1 bits (54), Expect = 3.9
 Identities = 11/51 (21%), Positives = 16/51 (31%), Gaps = 1/51 (1%)

Query: 7   DHYITREEFIEFCTNSNSKQDCLISQFKLFEKHYREQQKGVNEILDILKSV 57
           D  +T EEFI          + +   F  F    R    G    ++   S 
Sbjct: 149 DGELTLEEFINGMAKDQDLLEIVYKSFD-FSNVLRVICNGKQPDMETDSSK 198


>1s1e_A KV channel interacting protein 1; kchip, calcium-binding protein,
           EF-finger, transport protein; 2.30A {Homo sapiens} SCOP:
           a.39.1.5
          Length = 224

 Score = 24.3 bits (52), Expect = 7.2
 Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 4/32 (12%)

Query: 7   DHYITREEFIEFCTNSNSKQDCLISQFKLFEK 38
           D  +T +EF+E C     + D ++   +LF+ 
Sbjct: 187 DGIVTLDEFLESC----QEDDNIMRSLQLFQN 214


>1nxc_A Mannosyl-oligosaccharide 1,2-alpha-mannosidase IA; glycosidase,
           structural genomics, PSI, protein structure initiative;
           HET: NAG BMA MAN; 1.51A {Mus musculus} SCOP: a.102.2.1
          Length = 478

 Score = 23.8 bits (51), Expect = 8.5
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 6/47 (12%)

Query: 1   MTKRQEDHYITREEFIEFC------TNSNSKQDCLISQFKLFEKHYR 41
            T++ E +YI R E IE        T+    +       +  E H R
Sbjct: 359 ATRQNEKYYILRPEVIETYMYMWRLTHDPKYRTWAWEAVEALESHCR 405


>1nxi_A Conserved hypothetical protein VC0424; structural genomics, AB
          sandwich, COG 3076, ATCC NO. 51394D, NESG target OP3,
          PSI; NMR {Vibrio cholerae} SCOP: d.58.47.1
          Length = 132

 Score = 24.0 bits (52), Expect = 9.4
 Identities = 6/21 (28%), Positives = 9/21 (42%)

Query: 5  QEDHYITREEFIEFCTNSNSK 25
           +D Y++ EE IE        
Sbjct: 3  HQDDYLSVEELIEIQKEETRD 23


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.323    0.136    0.400 

Gapped
Lambda     K      H
   0.267   0.0564    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 737,814
Number of extensions: 26732
Number of successful extensions: 113
Number of sequences better than 10.0: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 28
Length of query: 90
Length of database: 5,693,230
Length adjustment: 57
Effective length of query: 33
Effective length of database: 4,311,322
Effective search space: 142273626
Effective search space used: 142273626
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 (22.0 bits)
S2: 50 (23.4 bits)