RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6159
         (101 letters)



>3f5f_A Maltose-binding periplasmic protein, heparan sulfate
           2-O-sulfotransferase 1; maltose binding protein, fusion,
           heparan sulfate biosynthesis; HET: GLC A3P; 2.65A
           {Escherichia coli k-12}
          Length = 658

 Score = 65.8 bits (160), Expect = 3e-14
 Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 3   VEKHYAVVGLLEDLNVTLTVMENYIPRFFAHASQIYNEGRLDRWIGERQPFREQTLSVED 62
           +   Y +VG+ E+L   + ++E  +PRFF  A+++Y  G+       R+   ++  +   
Sbjct: 546 LINEYFLVGVTEELEDFIMLLEAALPRFFRGATELYRTGKKSH---LRKTTEKKLPTAAT 602

Query: 63  KIRQERESN 71
             + ++   
Sbjct: 603 IAKLQQSEI 611


>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 = 33.3 bits (75), Expect = 0.007
 Identities = 18/111 (16%), Positives = 35/111 (31%), Gaps = 24/111 (21%)

Query: 6   HYAVVGLLEDLNVTLTVMENYIPRFFA-HASQIYNEGRLDRWIGERQPFREQTLS---VE 61
           HY +    +  ++    ++ Y       H   I +  R+         FR   L    +E
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL-------FRMVFLDFRFLE 504

Query: 62  DKIRQERESNPRPSA----------YK---ADAQPTKLTIGCRLANFILTL 99
            KIR +  +     +          YK    D  P    +   + +F+  +
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKI 555



 Score = 26.7 bits (58), Expect = 1.4
 Identities = 18/96 (18%), Positives = 31/96 (32%), Gaps = 23/96 (23%)

Query: 2   AVEKHYAVVGLLEDLN-------VTLTVMENYIPRFFAHA-----------SQIYNEGRL 43
           AV     +   L           V   +  NY  +F               +++Y E R 
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY--KFLMSPIKTEQRQPSMMTRMYIEQR- 116

Query: 44  DRWIGERQPFREQTLSVEDKIRQERES--NPRPSAY 77
           DR   + Q F +  +S      + R++    RP+  
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152


>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 = 28.8 bits (63), Expect = 0.23
 Identities = 8/40 (20%), Positives = 16/40 (40%), Gaps = 15/40 (37%)

Query: 49 ERQPFREQTLSVEDKIRQERESNPRPSAYKADAQPTKLTI 88
          E+Q  +        K+    +++ +   Y  D+ P  L I
Sbjct: 18 EKQALK--------KL----QASLKL--YADDSAPA-LAI 42


>1u19_A Rhodopsin; G protein-coupled receptor, membrane protein, retinal
           protei photoreceptor, signaling protein; HET: MAN NAG
           BMA RET PLM HTO HTG; 2.20A {Bos taurus} SCOP: f.13.1.2
           PDB: 1hzx_A* 1gzm_A* 1l9h_A* 2g87_A* 2hpy_A* 2i35_A*
           2i36_A* 2i37_A* 2ped_A* 3oax_A* 3c9l_A* 1jfp_A* 1ln6_A*
           1f88_A* 3cap_A* 3dqb_A* 3pqr_A* 3pxo_A* 3c9m_A* 2x72_A*
           ...
          Length = 349

 Score = 25.8 bits (57), Expect = 3.1
 Identities = 11/35 (31%), Positives = 14/35 (40%), Gaps = 2/35 (5%)

Query: 7   YAVVGLLEDLN--VTLTVMENYIPRFFAHASQIYN 39
           YA V      +       +   IP FFA  S +YN
Sbjct: 269 YAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYN 303


>3or8_A Transcription elongation factor SPT6; SH2, CTD binding; HET: MES;
           1.60A {Candida glabrata} PDB: 3pjp_A* 3psj_A* 3psk_A
           2l3t_A 3gxw_A 3gxx_A
          Length = 197

 Score = 25.2 bits (55), Expect = 3.6
 Identities = 11/65 (16%), Positives = 23/65 (35%), Gaps = 14/65 (21%)

Query: 14  EDLNVTLTVMENYIPRFFAHASQIYNEGRLDRWIGERQPFREQTLS-VEDKIRQERESNP 72
            DL+    ++  Y+       +++ +  +          F+  T   V   I    + NP
Sbjct: 82  HDLD---QIIVEYLQNKIRLLNELTSNEK----------FKAGTKKEVVKFIEDYSKVNP 128

Query: 73  RPSAY 77
           + S Y
Sbjct: 129 KKSVY 133


>3e18_A Oxidoreductase; dehydrogenase, NAD-binding, structural genom
           protein structure initiative, PSI, NEW YORK structural
           GENO research consortium; HET: NAD; 1.95A {Listeria
           innocua}
          Length = 359

 Score = 25.4 bits (56), Expect = 4.2
 Identities = 8/62 (12%), Positives = 21/62 (33%), Gaps = 15/62 (24%)

Query: 8   AVVGLLEDLNVTLTVMENYIPRF---FAHASQIYNEGRL----------DRWIGERQPFR 54
           A++ + + +N    V +N   R+   F    +++ +  +              G    +R
Sbjct: 107 AIMDVAKRVNKHFMVHQNR--RWDEDFLIIKEMFEQKTIGEMFHLESRVHGANGIPGDWR 164

Query: 55  EQ 56
             
Sbjct: 165 HL 166


>2b0t_A NADP isocitrate dehydrogenase; monomeric, IDH, oxidoreductase;
           1.75A {Corynebacterium glutamicum} PDB: 3mbc_A*
          Length = 738

 Score = 24.7 bits (53), Expect = 7.9
 Identities = 8/36 (22%), Positives = 16/36 (44%)

Query: 11  GLLEDLNVTLTVMENYIPRFFAHASQIYNEGRLDRW 46
           G+L   ++  T+M+   P  F H  + Y      ++
Sbjct: 245 GILFSAHLKATMMKVSDPIIFGHVVRAYFADVFAQY 280


  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
   0.320    0.135    0.396 

Gapped
Lambda     K      H
   0.267   0.0604    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,481,048
Number of extensions: 72984
Number of successful extensions: 140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 10
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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 (21.8 bits)
S2: 51 (23.7 bits)