RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13517
         (209 letters)



>3st7_A Capsular polysaccharide synthesis enzyme CAP5F; rossmann fold,
           cupid domain, short-chain dehydrogenase/reduc NADPH;
           2.45A {Staphylococcus aureus} PDB: 2zkl_A 3vhr_A
          Length = 369

 Score = 29.9 bits (67), Expect = 0.65
 Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 11/83 (13%)

Query: 68  HCKYKYLFNFRGVAASFRFKHLFLCKSLVFHVGDEWIEFFYPAMKPWVSH-LKNIARDE- 125
           H K +      G     RF+H+   + + ++V  + +E     +    +H ++N+   + 
Sbjct: 291 HTKNEKFLVVSG-KGVIRFRHVNDDEIIEYYVSGDKLEVVD--IPVGYTHNIENLGDTDM 347

Query: 126 ----WI-EFFYPAMKPWVHYVPV 143
               W+ E F P  +P  +++ V
Sbjct: 348 VTIMWVNEMFDPN-QPDTYFLEV 369


>3cih_A Putative alpha-rhamnosidase; structural genomics, protein structure
           initiative II, NYSGXRC, (alpha/alpha)6 barrel domain;
           2.33A {Bacteroides thetaiotaomicron vpi-5482}
          Length = 739

 Score = 28.9 bits (64), Expect = 1.5
 Identities = 8/74 (10%), Positives = 23/74 (31%), Gaps = 1/74 (1%)

Query: 95  LVFHVGD-EWIEFFYPAMKPWVSHLKNIARDEWIEFFYPAMKPWVHYVPVNKHASKQEIR 153
              + GD  ++   YP M+  + ++        +         +V +         +   
Sbjct: 396 YYMYSGDRHFVNQLYPRMQTMMDYVLGRTNKNGMVEGMSGDWVFVDWADGYLDKKGELSF 455

Query: 154 DMLHFFMHHDDVAE 167
           + + F    + +A 
Sbjct: 456 EQVLFCRSLETMAL 469


>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
           recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
           c.37.1.19 c.37.1.19
          Length = 644

 Score = 27.7 bits (62), Expect = 3.2
 Identities = 6/56 (10%), Positives = 16/56 (28%), Gaps = 4/56 (7%)

Query: 154 DMLHFFMHHDDVAEKIATRGYEFVMKNLKMKHVTQYWEVLLSKYAALLKYKPRLQK 209
             +          ++I ++   F+ +            +L+  Y     +   L K
Sbjct: 139 GRVQPVAIDGGSKDEIDSKLVNFISQQGMRIP----TPILIISYETFRLHAEVLHK 190


>3enu_A Nitrollin, putative uncharacterized protein; betagamma
          crystallin, structural protein; 1.86A {Nitrosospira
          multiformis} PDB: 3ent_A
          Length = 114

 Score = 26.7 bits (58), Expect = 3.3
 Identities = 9/68 (13%), Positives = 21/68 (30%), Gaps = 4/68 (5%)

Query: 5  LLNNNKGLGFFRGSRTSSERDPLIKLSRENSKLIDAAYTKNQAWKSDADTLHAPPAEEVS 64
          L N    + FF       +   L       + L          W++   ++   P   ++
Sbjct: 18 LENRGCWVKFFDKKNFQGDSLFLSG----PATLPRLIGPFGYDWENKVRSVKVGPRANLT 73

Query: 65 FEEHCKYK 72
            ++  Y+
Sbjct: 74 IFDNHNYR 81


>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 = 26.9 bits (59), Expect = 5.9
 Identities = 10/66 (15%), Positives = 21/66 (31%), Gaps = 14/66 (21%)

Query: 141 VPVNKHASKQEIRDMLHFFMHHDDVAEKIA------------TRGYEFVMKNLKMKHVTQ 188
           VP        ++++   F     +  E  A             +   +V   ++   V Q
Sbjct: 22  VPTASFFIASQLQE--QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQ 79

Query: 189 YWEVLL 194
           + +VL 
Sbjct: 80  FDQVLN 85


>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 = 26.7 bits (58), Expect = 6.5
 Identities = 16/112 (14%), Positives = 39/112 (34%), Gaps = 19/112 (16%)

Query: 21  SSERDPLIKLSR-ENSKLIDAAYTKNQAWKSDADTLHAPPAEEVSFEEHCKYKYLFNF-R 78
             + D ++ +++     L++      +  K    ++ +     +  E   K +  +   R
Sbjct: 399 VIKSDVMVVVNKLHKYSLVE------KQPKESTISIPS-----IYLELKVKLENEYALHR 447

Query: 79  GVAASFRFKHLFLCKSLVFHVGDEWIEFFYPAMKPWVSHLKNIARDEWIEFF 130
            +   +     F    L+    D++  + +        HLKNI   E +  F
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYF-YSHIGH-----HLKNIEHPERMTLF 493


>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 = 26.1 bits (56), Expect = 7.4
 Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 5/28 (17%)

Query: 149 KQEIRDM---LHFFMHHDDVAEKIATRG 173
           KQ ++ +   L  +   DD A  +A + 
Sbjct: 19  KQALKKLQASLKLYA--DDSAPALAIKA 44


  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
   0.324    0.136    0.436 

Gapped
Lambda     K      H
   0.267   0.0590    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,306,129
Number of extensions: 187087
Number of successful extensions: 524
Number of sequences better than 10.0: 1
Number of HSP's gapped: 519
Number of HSP's successfully gapped: 16
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.3 bits)