RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17279
         (198 letters)



>2ko2_A Reticulon-4; NOGO, membrane protein, peripheral, DPC micelle,
           myelin INHI endoplasmic reticulum, membrane,
           phosphoprotein, transmembr; NMR {Mus musculus}
          Length = 79

 Score = 95.3 bits (237), Expect = 3e-26
 Identities = 33/70 (47%), Positives = 54/70 (77%)

Query: 70  AIGFRIYKSILQAVQKTNEGHPFKEYLELDISLPADKVKAATEAAISHADATLLELRRIF 129
             G RIYK ++QA+QK++EGHPF+ YLE ++++  + V+  + +A+ H ++T+ ELRR+F
Sbjct: 10  PRGMRIYKGVIQAIQKSDEGHPFRAYLESEVAISEELVQKYSNSALGHVNSTIKELRRLF 69

Query: 130 LVEDFVDSIK 139
           LV+D VDS+K
Sbjct: 70  LVDDLVDSLK 79


>2g31_A Reticulon-4; NOGO, helix, signaling protein; NMR {Homo sapiens}
           PDB: 2jv5_A
          Length = 60

 Score = 90.7 bits (225), Expect = 1e-24
 Identities = 28/60 (46%), Positives = 47/60 (78%)

Query: 74  RIYKSILQAVQKTNEGHPFKEYLELDISLPADKVKAATEAAISHADATLLELRRIFLVED 133
           RIYK ++QA+QK++EGHPF+ YLE ++++  + V+  + +A+ H + T+ ELRR+FLV+D
Sbjct: 1   RIYKGVIQAIQKSDEGHPFRAYLESEVAISEELVQKYSNSALGHVNCTIKELRRLFLVDD 60


>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 = 47.7 bits (113), Expect = 9e-07
 Identities = 41/203 (20%), Positives = 70/203 (34%), Gaps = 67/203 (33%)

Query: 7   VLFWLPGERLDHYATEAVESLVYWRDPKISGAVFGVSLAVLISLA-----YYSLISVVAN 61
           +L + PGE   +                 +G   G+  AV I+       ++        
Sbjct: 255 LLGFTPGELRSYLKG-------------ATGHSQGLVTAVAIAETDSWESFFVS----VR 297

Query: 62  LALLVLVGAIGFRIYK---------SILQAVQKTNEGHPFKEYLELDIS-LPADKVKAAT 111
            A+ VL   IG R Y+         SIL+   + NEG P    + L IS L  ++V    
Sbjct: 298 KAITVLFF-IGVRCYEAYPNTSLPPSILEDSLENNEGVP--SPM-LSISNLTQEQV---- 349

Query: 112 EAAISHADATLLELRRIFLVEDFVDSIKFVIILWTFTYVGSWFNGLT-LVIIGF-VALFT 169
           +  ++  ++ L   +++ +                     S  NG   LV+ G   +L+ 
Sbjct: 350 QDYVNKTNSHLPAGKQVEI---------------------SLVNGAKNLVVSGPPQSLYG 388

Query: 170 LPKVYENNKATIDANLEVVQGKI 192
           L       KA    +    Q +I
Sbjct: 389 LNLTLRKAKAPSGLD----QSRI 407



 Score = 34.6 bits (79), Expect = 0.016
 Identities = 24/145 (16%), Positives = 42/145 (28%), Gaps = 51/145 (35%)

Query: 51  AYYSLISVV-------ANLALLVLVGAIGFRIYKSILQAV---QKTNEGHPFKEYLEL-D 99
            Y +   +        +N AL   VG    ++      A+   Q   +   F+E  +L  
Sbjct: 125 NYITARIMAKRPFDKKSNSALFRAVGEGNAQLV-----AIFGGQGNTD-DYFEELRDLYQ 178

Query: 100 ISLPADKVKAATEAAISHADATLLELRRIFLVEDFVDSIKFVIILWTFTY---VGSWFNG 156
                          I  +  TL E     L+   +D+ K       FT    +  W   
Sbjct: 179 TYHVL------VGDLIKFSAETLSE-----LIRTTLDAEKV------FTQGLNILEWLEN 221

Query: 157 --------------LTLVIIGFVAL 167
                         ++  +IG + L
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQL 246


>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 = 34.9 bits (79), Expect = 0.006
 Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 4/32 (12%)

Query: 81  QAVQKTNEGHPFKEYLELDISLPADKVKAATE 112
           QA++K  +    K Y + D S PA  +KA  E
Sbjct: 20  QALKKL-QAS-LKLYAD-D-SAPALAIKATME 47


>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 = 31.7 bits (71), Expect = 0.17
 Identities = 18/122 (14%), Positives = 39/122 (31%), Gaps = 31/122 (25%)

Query: 57  SVVANLALL--VLVGAIGFRIY----------KSILQAVQKTNEGHPFKEYLELDISLPA 104
           + VA    L   +   + F+I+          +++L+ +QK          L   I    
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK----------LLYQIDPNW 213

Query: 105 DKVKAATEAAISHADATLLELRRIFLVEDFVDSIKFVIIL---WTFTYVGSWFNGL--TL 159
                 +        +   ELRR+   + + + +   ++L          + FN     L
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL---LVLLNVQNAKAWNA-FNLSCKIL 269

Query: 160 VI 161
           + 
Sbjct: 270 LT 271


  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    0.139    0.400 

Gapped
Lambda     K      H
   0.267   0.0733    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,066,046
Number of extensions: 180740
Number of successful extensions: 410
Number of sequences better than 10.0: 1
Number of HSP's gapped: 410
Number of HSP's successfully gapped: 9
Length of query: 198
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 109
Effective length of database: 4,216,824
Effective search space: 459633816
Effective search space used: 459633816
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: 55 (25.0 bits)