RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4206
         (97 letters)



>2jgd_A 2-oxoglutarate dehydrogenase E1 component; flavoprotein,
           oxidoreductase, thiamine diphosphate, thiamine
           pyrophosphate, adenosine monophosphate; HET: AMP; 2.6A
           {Escherichia coli} PDB: 2jgd_B*
          Length = 933

 Score =  113 bits (286), Expect = 4e-31
 Identities = 36/96 (37%), Positives = 50/96 (52%), Gaps = 2/96 (2%)

Query: 1   MVFGSAHRGRLNLLTNIVHAPLVNVFSRFLPLEYTDPGDGDVKYHLGAYVKYRTPHSDKL 60
           +V G AHRGRLN+L N++     ++F  F        G GDVKYH+G    ++T     L
Sbjct: 254 VVLGMAHRGRLNVLVNVLGKKPQDLFDEFAGKHKEHLGTGDVKYHMGFSSDFQTD--GGL 311

Query: 61  MTLTLSSNPSHLELVYPVNLGKTKAFQFLSFRVDQK 96
           + L L+ NPSHLE+V PV +G  +A           
Sbjct: 312 VHLALAFNPSHLEIVSPVVIGSVRARLDRLDEPSSN 347


>2yic_A 2-oxoglutarate decarboxylase; lyase; HET: TPP; 1.96A {Mycobacterium
           smegmatis} PDB: 2xta_A* 2y0p_A* 2xt9_A* 2yid_A*
          Length = 868

 Score =  112 bits (283), Expect = 9e-31
 Identities = 41/98 (41%), Positives = 52/98 (53%), Gaps = 2/98 (2%)

Query: 1   MVFGSAHRGRLNLLTNIVHAPLVNVFSRFL--PLEYTDPGDGDVKYHLGAYVKYRTPHSD 58
           +V    HRGRLN+L NIV  P   +FS F          G GDVKYHLGA   Y     D
Sbjct: 174 VVIAMPHRGRLNVLANIVGKPYSQIFSEFEGNLNPSQAHGSGDVKYHLGATGTYIQMFGD 233

Query: 59  KLMTLTLSSNPSHLELVYPVNLGKTKAFQFLSFRVDQK 96
             + ++L++NPSHLE V PV  G  +A Q L    ++ 
Sbjct: 234 NDIEVSLTANPSHLEAVDPVLEGLVRAKQDLLDTGEEG 271


>2xt6_A 2-oxoglutarate decarboxylase; lyase, KDH, KGD; HET: TPP; 2.74A
           {Mycobacterium smegmatis}
          Length = 1113

 Score =  111 bits (281), Expect = 2e-30
 Identities = 40/90 (44%), Positives = 49/90 (54%), Gaps = 2/90 (2%)

Query: 1   MVFGSAHRGRLNLLTNIVHAPLVNVFSRFL--PLEYTDPGDGDVKYHLGAYVKYRTPHSD 58
           +V    HRGRLN+L NIV  P   +FS F          G GDVKYHLGA   Y     D
Sbjct: 419 VVIAMPHRGRLNVLANIVGKPYSQIFSEFEGNLNPSQAHGSGDVKYHLGATGTYIQMFGD 478

Query: 59  KLMTLTLSSNPSHLELVYPVNLGKTKAFQF 88
             + ++L++NPSHLE V PV  G  +A Q 
Sbjct: 479 NDIEVSLTANPSHLEAVDPVLEGLVRAKQD 508


>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
           cerevisiae}
          Length = 231

 Score = 30.9 bits (69), Expect = 0.042
 Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 16/85 (18%)

Query: 26  FSRFLP-LEYTDPGDGDVKYHLGAYVKYRT-----PHSDKLMTLTLSSNPSHLELVYPVN 79
             R +  LE +D      K+ + AY  +       P  ++++    +   ++ + V  +N
Sbjct: 144 LIRIVSGLELSDTKQKGKKFLVIAYEPFENIAIELP-PNEILFSENNDMDNNNDGVDELN 202

Query: 80  LG------KTKAF--QFLSFRVDQK 96
                    +K +  QF  F+  ++
Sbjct: 203 KKCTFWDAISKLYYVQFF-FKQAEQ 226


>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 = 28.5 bits (63), Expect = 0.36
 Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 18/64 (28%)

Query: 25  VFS-RFLPLEYTDPGDGDVKYHLGAYVKYRTPHSDK----LMTLTLSSNPSHLEL-VYPV 78
            FS RFLP+    P      +H         P SD     L+   +S N   +++ VY  
Sbjct: 415 KFSNRFLPV--ASP------FH----SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDT 462

Query: 79  NLGK 82
             G 
Sbjct: 463 FDGS 466


>2dgk_A GAD-beta, GADB, glutamate decarboxylase beta; gadbd1-14,
          autoinhibition, substituted aldamine, lyase; HET: PLP;
          1.90A {Escherichia coli} PDB: 2dgm_A* 1pmo_A* 2dgl_A*
          1pmm_A* 3fz6_A* 3fz7_A 3fz8_A* 1xey_A*
          Length = 452

 Score = 24.9 bits (54), Expect = 6.1
 Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 39 DGDVKYHLGAYVKYR-TPHSDKLMTLTLSSNPSHLELVYP 77
          DG+ + +L  + +     +  KLM L+++ N    E  YP
Sbjct: 39 DGNARQNLATFCQTWDDENVHKLMDLSINKNWIDKE-EYP 77


>3hbx_A GAD 1, glutamate decarboxylase 1; calmodulin-binding, lyase,
          pyridoxal phosphate; HET: LLP; 2.67A {Arabidopsis
          thaliana}
          Length = 502

 Score = 24.6 bits (53), Expect = 7.6
 Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 39 DGDVKYHLGAYVKYR-TPHSDKLMTLTLSSNPSHLELVYP 77
          DG+ + +L ++V     P  DKL+  +++ N   ++  YP
Sbjct: 53 DGNPRLNLASFVTTWMEPECDKLIMSSINKNYVDMD-EYP 91


>3hx6_A Type 4 fimbrial biogenesis protein PILY1; beta propeller, pilus
           protein, cell adhesion; 2.10A {Pseudomonas aeruginosa}
          Length = 570

 Score = 24.4 bits (51), Expect = 8.9
 Identities = 10/69 (14%), Positives = 22/69 (31%), Gaps = 5/69 (7%)

Query: 8   RGRLNLLTNIVHAPLVNVFSRFLPLEYTDPGDGDVKYHLGAYVKYRTPHSDKLMTLTLSS 67
           R R ++L +I+++    V           P +       G Y  +      +   + + +
Sbjct: 38  RTRNSILGDIINSSPATVGKAQYLTYLAQPIEPS-----GNYSTFAEAQKTRAPRVYVGA 92

Query: 68  NPSHLELVY 76
           N   L    
Sbjct: 93  NDGMLHGFD 101


  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
   0.322    0.139    0.414 

Gapped
Lambda     K      H
   0.267   0.0515    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,414,949
Number of extensions: 68800
Number of successful extensions: 104
Number of sequences better than 10.0: 1
Number of HSP's gapped: 101
Number of HSP's successfully gapped: 10
Length of query: 97
Length of database: 6,701,793
Length adjustment: 63
Effective length of query: 34
Effective length of database: 4,942,770
Effective search space: 168054180
Effective search space used: 168054180
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 (21.9 bits)
S2: 51 (23.9 bits)