RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3950
         (338 letters)



>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 = 51.0 bits (121), Expect = 3e-07
 Identities = 52/347 (14%), Positives = 103/347 (29%), Gaps = 84/347 (24%)

Query: 13  SSSDLLRELASESGFEMDEEGAAVIDHLNYDVKDAE---------KHTLIVADPSNLVDS 63
           S    LR L     +E       V+     +V++A+         K  L+      + D 
Sbjct: 229 SIQAELRRLLKSKPYE---NCLLVLL----NVQNAKAWNAFNLSCK-ILLTTRFKQVTDF 280

Query: 64  EVIVGKKPSSPLLYQGTGLIVDPANPLVLSVLSADSSAYSYNPDKPIKEYPHAVGKNTVL 123
            +         L +    L  D    L+L  L          P + +   P  +     +
Sbjct: 281 -LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL---PREVLTTNPRRLS----I 332

Query: 124 VAALQARNNAR-------------VVFSGSLYFFSNEAFNSPVQK------AIGGKKFDK 164
           +A       A               +   SL             +      ++    F  
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSL-----NVLEPAEYRKMFDRLSV----FPP 383

Query: 165 SSN--EAVVAALSAWV-FKENGVIRVKSVSHHK--VGEENPPVAYTIMDNVVFRLELERK 219
           S++    +++ +  W    ++ V+ V +  H    V ++      +I       LEL+ K
Sbjct: 384 SAHIPTILLSLI--WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS---IYLELKVK 438

Query: 220 SGNTWVPH----NANDVQMEFVRIDPFVRTT-----------LKSIAQGKYETVFKIPDV 264
             N +  H    +  ++   F   D                 LK+I   +  T+F    V
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF--RMV 496

Query: 265 YGVYQFKVIYNRIGYTGISNATQVSVRPLEHT--QYERFISSAYPYY 309
           +  ++F  +  +I +   +     S+         Y+ +I    P Y
Sbjct: 497 FLDFRF--LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541


>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 = 30.4 bits (68), Expect = 1.1
 Identities = 29/170 (17%), Positives = 49/170 (28%), Gaps = 78/170 (45%)

Query: 8    IAGSSSSSDLL-----RELASESGFEMDEEGAAVIDHLNYDVKDAEKHTLIVA-DPSNLV 61
            +A   S   L+     R +  +     DE G +     NY          ++A +P  + 
Sbjct: 1773 LADVMSIESLVEVVFYRGMTMQVAVPRDELGRS-----NYG---------MIAINPGRVA 1818

Query: 62   DS------EVIVGKKPSSPLLYQGTGLIVDPANPLVLSVLSADSSAYSYNPDKPIKEYPH 115
             S      + +V +      + + TG +V+  N               YN          
Sbjct: 1819 ASFSQEALQYVVER------VGKRTGWLVEIVN---------------YN---------- 1847

Query: 116  AVGKNTVLVAALQARNNARVVFSGSLYFFSNEAFN--SPVQKAIGGKKFD 163
                    V   Q       V +G L      A +  + V   I  +K D
Sbjct: 1848 --------VENQQ------YVAAGDL-----RALDTVTNVLNFIKLQKID 1878


>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 = 27.7 bits (62), Expect = 5.3
 Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 11/60 (18%)

Query: 279 YTGISNATQVSVRPLEHTQYERFISSAYPYYASAFSMMFGVFVFSI--------VFLHYK 330
           Y   SN T V   P E  QY  +++  + +   A   MF + +           V + +K
Sbjct: 11  YVPFSNKTGVVRSPFEAPQY--YLAEPWQFSMLAA-YMFLLIMLGFPINFLTLYVTVQHK 67


>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA,
           nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
          Length = 316

 Score = 27.5 bits (60), Expect = 6.6
 Identities = 9/59 (15%), Positives = 19/59 (32%)

Query: 18  LRELASESGFEMDEEGAAVIDHLNYDVKDAEKHTLIVADPSNLVDSEVIVGKKPSSPLL 76
              L +   F   +E     ++ + ++ + +   L      +   SE    KK     L
Sbjct: 227 FIYLENMLLFNNRQEIIEFCNYYSIEIINGDAADLKTLQHYSHKLSETQPLKKTYLTCL 285


>1nko_A Sialic acid binding IG-like lectin 7; immunoglobulin, siglec7,
           immune system; 1.45A {Homo sapiens} SCOP: b.1.1.1 PDB:
           2g5r_A* 1o7v_A* 2df3_A* 1o7s_A* 2hrl_A*
          Length = 132

 Score = 26.4 bits (58), Expect = 8.0
 Identities = 8/31 (25%), Positives = 13/31 (41%)

Query: 266 GVYQFKVIYNRIGYTGISNATQVSVRPLEHT 296
           G Y F++    I +    +   V+V  L H 
Sbjct: 101 GRYFFRMEKGNIKWNYKYDQLSVNVTALTHR 131


>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
           amino acid binding, ligase; 2.08A {Aquifex aeolicus}
           SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
           1ygb_A 3htz_A
          Length = 465

 Score = 27.2 bits (61), Expect = 9.4
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 16  DLLRELASESGFEMDEEG 33
           DL+ E+A E G  +D EG
Sbjct: 396 DLIDEIAREKGLGIDLEG 413


  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
   0.316    0.133    0.376 

Gapped
Lambda     K      H
   0.267   0.0477    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,130,726
Number of extensions: 310073
Number of successful extensions: 627
Number of sequences better than 10.0: 1
Number of HSP's gapped: 626
Number of HSP's successfully gapped: 11
Length of query: 338
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 244
Effective length of database: 4,077,219
Effective search space: 994841436
Effective search space used: 994841436
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.7 bits)