RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy593
         (70 letters)



>3ryc_B Tubulin beta chain; alpha-tubulin, beta-tubulin, GTPase,
           microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
           {Ovis aries} PDB: 3ryf_B* 3ryh_B* 3ryi_B* 3hke_B*
           3du7_B* 3e22_B* 3hkc_B* 3hkd_B* 3hkb_B* 3n2g_B* 3n2k_B*
           1z2b_B* 2xrp_A* 1tvk_B* 1tub_B* 1jff_B* 1ia0_B* 1ffx_B*
           1sa0_B* 1sa1_B* ...
          Length = 445

 Score = 85.9 bits (213), Expect = 6e-22
 Identities = 33/55 (60%), Positives = 41/55 (74%)

Query: 1   MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDE 55
           MFRRKAFLHWYT EGMDE EF EA +N+ DL+ EYQQYQ+A+ ++  E    + E
Sbjct: 388 MFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATADEQGEFEEEEGE 442


>2bto_A Tubulin btuba; bacterial tubulin, polymerization, cytoskeleton,
           protein COM cytoskeletal protein; HET: GTP; 2.5A
           {Prosthecobacter dejongeii} SCOP: c.32.1.1 d.79.2.1 PDB:
           2btq_A*
          Length = 473

 Score = 78.3 bits (193), Expect = 3e-19
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 1   MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDE 55
           +++RKAF +WY  EGM E + +   A+ ++L+  YQ  +E+  +  V+ +  D  
Sbjct: 393 LWQRKAFANWYLNEGMSEEQINVLRASAQELVQSYQVAEESGAKAKVQDSAGDTG 447


>3cb2_A Gamma-1-tubulin, tubulin gamma-1 chain; lattice, microtubule,
           nucleation, GTPase, lateral interaction, structural
           protein, hydrolase; HET: GDP; 2.30A {Homo sapiens} PDB:
           1z5v_A* 1z5w_A*
          Length = 475

 Score = 77.0 bits (190), Expect = 9e-19
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 1   MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDEKGD 58
           + +R+AFL  +  E M +  F E   + E +     +Y  A+  D +   T +    D
Sbjct: 398 LRKREAFLEQFRKEDMFKDNFDEMDTSREIVQQLIDEYHAATRPDYISWGTQEQVDVD 455


>3ryc_A Tubulin alpha chain; alpha-tubulin, beta-tubulin, GTPase,
           microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
           {Ovis aries} PDB: 3ryf_A* 3ryh_A* 3ryi_A* 3hke_A*
           3hkc_A* 3hkd_A* 3hkb_A* 3n2g_A* 3n2k_A* 1sa0_A* 1sa1_A*
           3edl_F* 1ffx_A* 1ia0_A* 2hxf_A* 2hxh_A* 2p4n_A* 1jff_A*
           2wbe_A* 3dco_A* ...
          Length = 451

 Score = 76.0 bits (187), Expect = 2e-18
 Identities = 18/45 (40%), Positives = 29/45 (64%)

Query: 1   MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIED 45
           M+ ++AF+HWY  EGM+E EF EA  ++  L  +Y++    S+E 
Sbjct: 398 MYAKRAFVHWYVGEGMEEGEFSEAREDMAALEKDYEEVGVDSVEG 442


>2btq_B Tubulin btubb; structural protein, cytoskeletal protein/complex,
           bacterial tubulin, cytoskeleton, polymerization,
           verrucomicrobia; HET: GDP; 3.2A {Prosthecobacter
           dejongeii}
          Length = 426

 Score = 71.3 bits (175), Expect = 8e-17
 Identities = 10/37 (27%), Positives = 15/37 (40%)

Query: 1   MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQ 37
           MF   A+ HWY   G+      +A   +  L   Y+ 
Sbjct: 388 MFDNHAYTHWYENAGVSRDMMAKARNQIATLAQSYRD 424


>1nd9_A Translation initiation factor IF-2; NMR {Escherichia coli} SCOP:
          a.6.1.6
          Length = 49

 Score = 25.4 bits (56), Expect = 0.65
 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 3/34 (8%)

Query: 23 EAGANVEDLICEYQQYQEASIEDTVEIATSDDEK 56
          E   +VE L+   QQ+ +A I  + + + S  EK
Sbjct: 11 ERQTSVERLV---QQFADAGIRKSADDSVSAQEK 41


>3lyu_A Putative hydrogenase; the C-terminal has AN alpha-beta fold,
          structural genomics, PSI-2, protein structure
          initiative; 2.30A {Pyrococcus furiosus}
          Length = 142

 Score = 24.2 bits (53), Expect = 3.4
 Identities = 5/38 (13%), Positives = 12/38 (31%), Gaps = 2/38 (5%)

Query: 24 AGANVEDLIC--EYQQYQEASIEDTVEIATSDDEKGDH 59
                 +I   E ++     I + V +  + D   + 
Sbjct: 51 HVTFEPMVILKEELEKAVTRHIVEPVPLNPNQDFLANM 88


>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 = 24.2 bits (52), Expect = 4.8
 Identities = 6/43 (13%), Positives = 17/43 (39%), Gaps = 1/43 (2%)

Query: 4  RKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDT 46
          ++ F      E  + F   +      +L+ ++  Y  + +E +
Sbjct: 34 QEQFNKILP-EPTEGFAADDEPTTPAELVGKFLGYVSSLVEPS 75


>2nwv_A XISI protein-like; YP_323822.1, structural genomics, PSI-2,
          structure initiative, joint center for structural
          genomics; 1.85A {Anabaena variabilis} SCOP: d.326.1.1
          Length = 114

 Score = 23.5 bits (51), Expect = 6.4
 Identities = 8/32 (25%), Positives = 13/32 (40%)

Query: 28 VEDLICEYQQYQEASIEDTVEIATSDDEKGDH 59
          ++ ++ EY      S E   E     DE  D+
Sbjct: 12 IKQVLTEYDNLSRQSPETNYETCLVFDENHDN 43


  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
   0.315    0.132    0.392 

Gapped
Lambda     K      H
   0.267   0.0669    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,109,365
Number of extensions: 52055
Number of successful extensions: 112
Number of sequences better than 10.0: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 11
Length of query: 70
Length of database: 6,701,793
Length adjustment: 40
Effective length of query: 30
Effective length of database: 5,584,953
Effective search space: 167548590
Effective search space used: 167548590
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: 51 (23.5 bits)