RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17531
         (255 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 = 37.9 bits (87), Expect = 0.003
 Identities = 41/289 (14%), Positives = 80/289 (27%), Gaps = 87/289 (30%)

Query: 7   MDGL--TTMAISSRGPSPIPVEQRL--GIYWEEKVSWKTNDYGNYGAPPPSQGGYEEMCE 62
           + G   T +A+         V+ ++   I+W   ++       N  +P        EM +
Sbjct: 158 VLGSGKTWVALDV--CLSYKVQCKMDFKIFW---LN-----LKNCNSP----ETVLEMLQ 203

Query: 63  NCWLHSDSSTKQ---HLQNVYGCLTLGMLAATAGAYLQLTQAMFQSTLVML-----LSSV 114
                 D +      H  N    + L + +  A     L    +++ L++L       + 
Sbjct: 204 KLLYQIDPNWTSRSDHSSN----IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW 259

Query: 115 GAFGF----LIYVMSTKNQINSNR---NRTGAFI------GFT---------LCTGIGLG 152
            AF      L+   +T+ +  ++      T            T                 
Sbjct: 260 NAFNLSCKILL---TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316

Query: 153 PLLEMAIVVNPSIVVTAFMLTTLLFVSFTLAAIFAREG-----QWIYIGGSLMTMLSTLI 207
            L    +  NP              +S  + A   R+G      W ++       L+T+I
Sbjct: 317 DLPREVLTTNP------------RRLS--IIAESIRDGLATWDNWKHVNCD---KLTTII 359

Query: 208 TLSLANLFFGSKLLFDRYLLVKNLG---DDNKTARASTLVM-WVKIMFY 252
             SL  L          +     L              L + W  ++  
Sbjct: 360 ESSLNVL--EPAEYRKMF---DRLSVFPPSAHIP-TILLSLIWFDVIKS 402


>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 = 30.0 bits (67), Expect = 1.0
 Identities = 20/99 (20%), Positives = 30/99 (30%), Gaps = 29/99 (29%)

Query: 88   LAATAGAYLQLTQAMFQSTLV----MLLSSV---GAFGFLIYVMSTKNQINSNRNRTGAF 140
            LA+ A   + +   +    +V    M +         G   Y M     I  N  R  A 
Sbjct: 1770 LASLADV-MSIESLV---EVVFYRGMTMQVAVPRDELGRSNYGM-----IAINPGRVAAS 1820

Query: 141  IG----FTLCTGIG--LGPLLEMAIVVN----PSIVVTA 169
                    +   +G   G L+E   +VN        V A
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVE---IVNYNVENQQYVAA 1856


>2qqm_A Neuropilin-1; VEGF receptor, semaphorin receptor, calcium-binding
           domain, angiogenesis, developmental protein,
           differentiation; HET: NAG FUC; 2.00A {Homo sapiens}
           SCOP: b.18.1.2 b.18.1.2 b.23.1.1
          Length = 450

 Score = 29.2 bits (65), Expect = 1.3
 Identities = 16/130 (12%), Positives = 36/130 (27%), Gaps = 2/130 (1%)

Query: 3   AVTTMDGLTTMAISSRGPSPIPVEQRLGIYWEEKVSWKTNDYGN--YGAPPPSQGGYEEM 60
           +    +G +      +       +    +  E           +  Y     ++      
Sbjct: 115 SAIAKEGFSANYSVLQSSVSEDFKCMEALGMESGEIHSDQITASSQYSTNWSAERSRLNY 174

Query: 61  CENCWLHSDSSTKQHLQNVYGCLTLGMLAATAGAYLQLTQAMFQSTLVMLLSSVGAFGFL 120
            EN W   + S ++ +Q   G L       T GA  + T+  +      +  S     ++
Sbjct: 175 PENGWTPGEDSYREWIQVDLGLLRFVTAVGTQGAISKETKKKYYVKTYKIDVSSNGEDWI 234

Query: 121 IYVMSTKNQI 130
                 K  +
Sbjct: 235 TIKEGNKPVL 244


>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'-
           (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA;
           2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14
          Length = 234

 Score = 27.4 bits (61), Expect = 4.4
 Identities = 8/38 (21%), Positives = 10/38 (26%)

Query: 57  YEEMCENCWLHSDSSTKQHLQNVYGCLTLGMLAATAGA 94
           Y  +C  C+    S       N   C   G       A
Sbjct: 181 YHSVCRLCYFKKASGQPAGPDNAANCPVPGKPGEAVAA 218


>2ahx_A P180ERBB4, receptor tyrosine-protein kinase ERBB-4; X-RAY
           crystallography, neuregulins, heparin-binding, cell CY
           signaling protein; HET: NAG NDG; 2.40A {Homo sapiens}
           PDB: 3u2p_A*
          Length = 617

 Score = 27.3 bits (59), Expect = 5.5
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 3/55 (5%)

Query: 195 IGGSLMTMLSTLITLSLANLFF--GSKLLFDRY-LLVKNLGDDNKTARASTLVMW 246
           + G ++  L+    L L NL    G+KL  DRY L +      +       L + 
Sbjct: 59  VTGYVLVALNQFRYLPLENLRIIRGTKLYEDRYALAIFLNYRKDGNFGLQELGLK 113


  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
   0.323    0.136    0.410 

Gapped
Lambda     K      H
   0.267   0.0637    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,704,987
Number of extensions: 207080
Number of successful extensions: 324
Number of sequences better than 10.0: 1
Number of HSP's gapped: 324
Number of HSP's successfully gapped: 11
Length of query: 255
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 164
Effective length of database: 4,160,982
Effective search space: 682401048
Effective search space used: 682401048
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.5 bits)