RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11577
         (89 letters)



>1kcm_A PITP alpha, phosphatidylinositol transfer protein alpha;
           phospholipid binding protein, phospholipid transport,
           binding protein; 2.00A {Mus musculus} SCOP: d.129.3.4
           PDB: 1t27_A* 1uw5_A* 2a1l_A*
          Length = 270

 Score = 61.2 bits (148), Expect = 4e-13
 Identities = 25/47 (53%), Positives = 30/47 (63%), Gaps = 1/47 (2%)

Query: 42  VHDLPADKLKVREVVHIDIGN-DPVSAGDYKETEDPAKFKSEKTGRG 87
           VH L  +  K  E ++IDI +   V + DYK  EDPAKFKS KTGRG
Sbjct: 125 VHKLEPEAWKHVEAIYIDIADRSQVLSKDYKAEEDPAKFKSVKTGRG 171


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 29.2 bits (65), Expect = 0.16
 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 8/47 (17%)

Query: 30  EFGPEELPGFG-LVHDLPADKLKVREVV--HIDIG-NDPVSAGDYKE 72
           +FGP    G G L H    D   VR +V   +DI  +D    G +K+
Sbjct: 503 DFGPGGASGLGVLTHRN-KDGTGVRVIVAGTLDINPDDDY--G-FKQ 545


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 28.6 bits (63), Expect = 0.18
 Identities = 7/31 (22%), Positives = 15/31 (48%), Gaps = 5/31 (16%)

Query: 5   KW-EKRKKS----DEEEEKKKEEEEEEGAGE 30
           KW E+++K     D   +  ++E  E+   +
Sbjct: 89  KWREEQRKRLQELDAASKVMEQEWREKAKKD 119


>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA
           damage, chromatin regulator, chromosomal protein, DNA
           repair, metal-binding; 2.12A {Homo sapiens}
          Length = 115

 Score = 25.6 bits (56), Expect = 1.5
 Identities = 7/30 (23%), Positives = 14/30 (46%)

Query: 8   KRKKSDEEEEKKKEEEEEEGAGEFGPEELP 37
           ++    E + +   +E EE A ++ P  L 
Sbjct: 83  QKHYPRECKLRASGQESEEVADDYQPVRLL 112


>1vq8_G Acidic ribosomal protein P0 homolog; ribosome 50S, protein-protein
           complex, RNA-RNA complex, PROT complex, peptidyl
           transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
           2.20A {Haloarcula marismortui} SCOP: j.84.1.1 PDB:
           1k73_I* 1k8a_I* 1k9m_I* 1kc8_I* 1kd1_I* 1kqs_G* 1m1k_I*
           1m90_I* 1n8r_I* 1nji_I* 1q7y_I* 1q81_I* 1q82_I* 1q86_I*
           1qvf_G 1qvg_G 1s72_G* 1vq4_G* 1vq5_G* 1vq6_G* ...
          Length = 348

 Score = 25.2 bits (54), Expect = 3.3
 Identities = 6/35 (17%), Positives = 15/35 (42%)

Query: 7   EKRKKSDEEEEKKKEEEEEEGAGEFGPEELPGFGL 41
           ++   +  E++   ++  EE   +   +E  G  L
Sbjct: 310 DQDDDTASEDDADADDAAEEADDDDDDDEDAGDAL 344


>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
           lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
           1u0y_A* 1yt2_A*
          Length = 269

 Score = 24.9 bits (55), Expect = 3.6
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 1   MKYDKWEKRKKSDEEEEKKKEEEEEE 26
           +   K E  ++  EEEE  KEE+E+ 
Sbjct: 213 VWSSKTETVEEPMEEEEAAKEEKEDS 238


>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 = 24.9 bits (53), Expect = 4.1
 Identities = 4/28 (14%), Positives = 11/28 (39%), Gaps = 3/28 (10%)

Query: 14 EEEEKKKEEEEEEGAGEFGPEELPGFGL 41
          E++  KK +   +    +  +  P   +
Sbjct: 18 EKQALKKLQASLK---LYADDSAPALAI 42


>2xzm_B RPS0E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
           2xzn_B
          Length = 241

 Score = 24.8 bits (54), Expect = 5.0
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 4   DKWEKRKKSDEEEEKKKEEEEEEGAGEFGPEELPG 38
           D +  +     E+++ +EEE  EGA E   E   G
Sbjct: 196 DLFYHKTLPTAEQKEAEEEEGAEGAEEKVAEVKEG 230


>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
          binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A
          {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A*
          2zuc_A* 2zud_A*
          Length = 324

 Score = 23.9 bits (52), Expect = 8.8
 Identities = 7/34 (20%), Positives = 10/34 (29%), Gaps = 5/34 (14%)

Query: 21 EEEEEEGAGEFGPEELPGFGLVHDLPADKLKVRE 54
            E E+        +LPG            K+ E
Sbjct: 2  SNEVEQKKNIKTINDLPGIS-----QTVINKLIE 30


  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
   0.304    0.132    0.374 

Gapped
Lambda     K      H
   0.267   0.0562    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,450,101
Number of extensions: 80683
Number of successful extensions: 466
Number of sequences better than 10.0: 1
Number of HSP's gapped: 383
Number of HSP's successfully gapped: 85
Length of query: 89
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 32
Effective length of database: 5,110,296
Effective search space: 163529472
Effective search space used: 163529472
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 51 (23.8 bits)