RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10193
         (135 letters)



>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 = 31.5 bits (70), Expect = 0.044
 Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 5/24 (20%)

Query: 104 EIAKAIATLPKLVEENYAPNPQPA 127
            + K  A+L KL    YA +  PA
Sbjct: 21  ALKKLQASL-KL----YADDSAPA 39


>3zxs_A Cryptochrome B, rscryb; lyase, cryPro, lumazine,
           iron-sulfur-cluster; HET: FAD DLZ; 2.70A {Rhodobacter
           sphaeroides}
          Length = 522

 Score = 28.2 bits (63), Expect = 0.77
 Identities = 10/52 (19%), Positives = 17/52 (32%)

Query: 73  DGTPIQTQWYADETGYHASGAHLPTPPPIPDEIAKAIATLPKLVEENYAPNP 124
              P   +W  D      +   L  P P+  E    +  +  LVE  +  + 
Sbjct: 178 GDEPAGGKWNFDTENRKPAAPDLLRPRPLRFEPDAEVRAVLDLVEARFPRHF 229


>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 = 28.1 bits (62), Expect = 1.1
 Identities = 23/124 (18%), Positives = 33/124 (26%), Gaps = 40/124 (32%)

Query: 31  TYKFAFETGN-GIAVQEQGALKNAGQKDLEAQT-AQ--GQSSYTSPDGTPIQTQWYADE- 85
            Y  A          +   AL  A  +   AQ  A   GQ       G    T  Y +E 
Sbjct: 125 NYITARIMAKRPFDKKSNSALFRAVGEG-NAQLVAIFGGQ-------GN---TDDYFEEL 173

Query: 86  -TGYHASGAHLPTPPPIPDE-IAKAIATLPKLVEENYAP---------------NPQPAP 128
              Y        T   +  + I  +  TL +L+                     NP   P
Sbjct: 174 RDLYQ-------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP 226

Query: 129 GRGF 132
            + +
Sbjct: 227 DKDY 230


>1e4e_A Vancomycin/teicoplanin A-type resistance protein; ligase, cell
           WALL, antibiotic resistance, membrane, peptidog
           synthesis; HET: ADP PHY; 2.5A {Enterococcus faecium}
           SCOP: c.30.1.2 d.142.1.1 PDB: 1e4e_B*
          Length = 343

 Score = 27.6 bits (62), Expect = 1.4
 Identities = 5/25 (20%), Positives = 8/25 (32%)

Query: 85  ETGYHASGAHLPTPPPIPDEIAKAI 109
           E    +  A +  P  +  E    I
Sbjct: 248 EPEKGSENAVITVPADLSAEERGRI 272


>3lwb_A D-alanine--D-alanine ligase; DDL, D-alanyl--D-alanine ligase
           RV2981C, structural genomics, TB structural GENO
           consortium, TBSGC; 2.10A {Mycobacterium tuberculosis}
          Length = 373

 Score = 27.2 bits (61), Expect = 1.6
 Identities = 10/29 (34%), Positives = 15/29 (51%)

Query: 81  WYADETGYHASGAHLPTPPPIPDEIAKAI 109
           +Y   T Y    A L  P  + D++A+AI
Sbjct: 270 FYDFATKYLDDAAELDVPAKVDDQVAEAI 298


>3kev_A Galieria sulfuraria DCUN1 domain-containing prote; cullin,
           neddylation, DCN-1, center for eukaryotic structural
           genomics, PSI; HET: CSO MSE; 1.30A {Galdieria
           sulphuraria}
          Length = 199

 Score = 26.1 bits (57), Expect = 3.5
 Identities = 10/51 (19%), Positives = 15/51 (29%), Gaps = 11/51 (21%)

Query: 32  YKFAFETGNGIAVQEQGALKNAGQKDLEAQTAQGQSSYTSPDGTPIQTQWY 82
           Y+F F+             K   Q+ L A+TA             +   W 
Sbjct: 101 YQFVFQYS-----------KEPSQRSLPAETAMALWDVLLRGRFSLLDSWL 140


>2i87_A D-alanine-D-alanine ligase; APO; 2.00A {Staphylococcus aureus
           subsp} PDB: 2i8c_A* 3n8d_A* 2i80_A*
          Length = 364

 Score = 25.6 bits (57), Expect = 6.0
 Identities = 4/29 (13%), Positives = 12/29 (41%)

Query: 81  WYADETGYHASGAHLPTPPPIPDEIAKAI 109
           +Y  ++ Y      L  P  + +++   +
Sbjct: 245 FYDYKSKYKDGKVQLQIPADLDEDVQLTL 273


>2fb9_A D-alanine:D-alanine ligase; 1.90A {Thermus caldophilus} PDB:
           2zdh_A* 2yzg_A 2yzn_A* 2yzm_A* 2zdg_A* 2zdq_A*
          Length = 322

 Score = 25.2 bits (56), Expect = 7.3
 Identities = 9/32 (28%), Positives = 13/32 (40%)

Query: 81  WYADETGYHASGAHLPTPPPIPDEIAKAIATL 112
           +Y  ET Y    A L  P P+     + +  L
Sbjct: 225 FYDYETKYTPGRAELLIPAPLDPGTQETVQEL 256


>1q1q_A SULT2B1A, sulfotransferase family, cytosolic, 2B, member 1 isoform
           A; pregnenolone, PAP; HET: A3P NHE; 2.91A {Homo sapiens}
           SCOP: c.37.1.5
          Length = 350

 Score = 25.2 bits (55), Expect = 7.6
 Identities = 12/52 (23%), Positives = 17/52 (32%), Gaps = 3/52 (5%)

Query: 80  QWYADETGYHASGAHLPTPPPIPDEIAKAIATLPKLVEENYAPNPQPAPGRG 131
            W  D       G+  P P P P+             E     +P P+PG+ 
Sbjct: 293 PWDEDPE---EDGSPDPEPSPEPEPKPSLEPNTSLEREPRPNSSPSPSPGQA 341


>3k3p_A D-alanine--D-alanine ligase; D-alanyl-alanine synthetase,
           ATP-binding, cell shape, cell W biogenesis/degradation,
           magnesium, manganese; 2.23A {Streptococcus mutans}
          Length = 383

 Score = 24.9 bits (55), Expect = 9.9
 Identities = 6/32 (18%), Positives = 11/32 (34%)

Query: 81  WYADETGYHASGAHLPTPPPIPDEIAKAIATL 112
           +Y  E  Y  +   +  P  I   I + +   
Sbjct: 275 FYDYEAKYIDNKITMAIPAEIDPVIVEKMRDY 306


  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
   0.310    0.131    0.394 

Gapped
Lambda     K      H
   0.267   0.0659    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,157,054
Number of extensions: 119559
Number of successful extensions: 278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 277
Number of HSP's successfully gapped: 19
Length of query: 135
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 51
Effective length of database: 4,356,429
Effective search space: 222177879
Effective search space used: 222177879
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.0 bits)