RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4061
         (119 letters)



>4a2n_B Isoprenylcysteine carboxyl methyltransferase; membrane protein, RAS
           and RHO gtpases signallin; HET: SAH PLM CDL; 3.40A
           {Methanosarcina acetivorans}
          Length = 194

 Score = 31.4 bits (71), Expect = 0.035
 Identities = 19/77 (24%), Positives = 27/77 (35%), Gaps = 9/77 (11%)

Query: 2   SRHPNYFGEIVLWWGMFIISLNVIRGAEFVCVLSPIFITLIILFLSGIPLLERSSDHKYR 61
            RHP Y    +      II  N +       VL    +   IL+   +P  E     ++ 
Sbjct: 124 IRHPMYAHLWLWVITQGIILSNWV-------VLIFGIVAWAILYFIRVPKEEELLIEEFG 176

Query: 62  DNAKYQYYKKSTSPLIP 78
           D  +Y  Y   T  L P
Sbjct: 177 D--EYIEYMGKTGRLFP 191


>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 = 0.29
 Identities = 9/36 (25%), Positives = 11/36 (30%), Gaps = 20/36 (55%)

Query: 86  EVPKF---LKFILCCEYPLYDWMSEHPTDPPDAAPA 118
            + K    LK        LY           D+APA
Sbjct: 21  ALKKLQASLK--------LY---------ADDSAPA 39



 Score = 24.9 bits (53), Expect = 7.7
 Identities = 6/31 (19%), Positives = 15/31 (48%), Gaps = 2/31 (6%)

Query: 53 ERSSDHKYRDNAKYQYYKKSTSPLIPIPPSV 83
          E+ +  K + + K   Y   ++P + I  ++
Sbjct: 18 EKQALKKLQASLKL--YADDSAPALAIKATM 46


>1n4q_B Geranyltransferase type-I beta subunit; protein
           geranylgeranyltransferase type-I, ggtase; HET: MGM GER;
           2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B*
           1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B*
           1tnz_B*
          Length = 377

 Score = 26.3 bits (57), Expect = 2.6
 Identities = 6/23 (26%), Positives = 10/23 (43%)

Query: 92  KFILCCEYPLYDWMSEHPTDPPD 114
            +IL  +  L    ++ P   PD
Sbjct: 296 NYILSTQDRLVGGFAKWPDSHPD 318


>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
           NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
          Length = 478

 Score = 25.6 bits (56), Expect = 4.3
 Identities = 8/42 (19%), Positives = 16/42 (38%)

Query: 47  SGIPLLERSSDHKYRDNAKYQYYKKSTSPLIPIPPSVYVEVP 88
             + ++       +  N    YY++S   L P   S++   P
Sbjct: 427 CTVSMVPADKLPSFLANVHKAYYQRSDGSLAPEKQSLFATKP 468


>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein;
          membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP:
          c.37.1.12
          Length = 240

 Score = 24.8 bits (55), Expect = 7.1
 Identities = 5/22 (22%), Positives = 12/22 (54%)

Query: 15 WGMFIISLNVIRGAEFVCVLSP 36
           G F ++++   G ++  +L P
Sbjct: 11 LGNFRLNVDFEMGRDYCVLLGP 32


>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 = 25.0 bits (54), Expect = 9.0
 Identities = 11/66 (16%), Positives = 19/66 (28%), Gaps = 17/66 (25%)

Query: 66  YQYYKKSTSPLI--------PIPPSVYVEVPKFLKFILCCEYPLYDWMSEHPTDPPD--- 114
           YQ Y      LI         +  +  ++  K     L     + +W+      P     
Sbjct: 177 YQTYHVLVGDLIKFSAETLSELIRTT-LDAEKVFTQGL----NILEWLENPSNTPDKDYL 231

Query: 115 -AAPAS 119
            + P S
Sbjct: 232 LSIPIS 237


>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein
           prenylation, metal-binding, prenyltransferase, zinc,
           phosphoprotein; 1.80A {Rattus norvegicus} SCOP:
           a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B*
           3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B*
           3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B*
          Length = 331

 Score = 24.7 bits (53), Expect = 9.5
 Identities = 7/24 (29%), Positives = 10/24 (41%)

Query: 92  KFILCCEYPLYDWMSEHPTDPPDA 115
            FIL C+       ++ P D  D 
Sbjct: 265 SFILACQDEETGGFADRPGDMVDP 288


>4aqt_A Laminin subunit gamma-1; cell adhesion; HET: NAG BMA; 3.20A {Mus
           musculus}
          Length = 375

 Score = 24.7 bits (53), Expect = 9.9
 Identities = 13/100 (13%), Positives = 30/100 (30%), Gaps = 20/100 (20%)

Query: 14  WWGMFIISLNVIRGAEFVCVLSP--------IFITLIILFLSGIP---LLERSSDH--KY 60
           WW     S  ++ G ++   ++             + + F +  P    + + +     +
Sbjct: 86  WW----QSQTMLAGVQYPNSINLTLHLGKAFDITYVRLKFHTSRPESFAIYKRTREDGPW 141

Query: 61  RDNAKYQYYKKSTSPLIPIPPSVYVEVPKFLKFILCCEYP 100
                YQYY  S           ++      +  LC +  
Sbjct: 142 IP---YQYYSGSCENTYSKANRGFIRTGGDEQQALCTDEF 178


  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
   0.325    0.143    0.473 

Gapped
Lambda     K      H
   0.267   0.0503    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,944,349
Number of extensions: 100496
Number of successful extensions: 281
Number of sequences better than 10.0: 1
Number of HSP's gapped: 279
Number of HSP's successfully gapped: 13
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
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: 51 (24.0 bits)