RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14218
         (99 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 =  165 bits (420), Expect = 3e-51
 Identities = 84/89 (94%), Positives = 89/89 (100%)

Query: 1   FWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVPRAILVDLEPGTMDAVRSG 60
           FWE+ISDEHGIDPTG+YHGDSDLQLERINVYYNEA+G+KYVPRAILVDLEPGTMD+VRSG
Sbjct: 20  FWEVISDEHGIDPTGSYHGDSDLQLERINVYYNEATGNKYVPRAILVDLEPGTMDSVRSG 79

Query: 61  PFGQIFRPDNFVFGQSGAGNNWAKGHYTE 89
           PFGQIFRPDNFVFGQSGAGNNWAKGHYTE
Sbjct: 80  PFGQIFRPDNFVFGQSGAGNNWAKGHYTE 108


>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 =  158 bits (402), Expect = 1e-48
 Identities = 37/91 (40%), Positives = 54/91 (59%), Gaps = 2/91 (2%)

Query: 1   FWEIISDEHGIDPTGAYHGDSDLQ--LERINVYYNEASGSKYVPRAILVDLEPGTMDAVR 58
            WE+   EHGI P G    D  +    +  N +++E    K+VPRA+ VDLEP  +D VR
Sbjct: 20  CWELYCLEHGIQPDGQMPSDKTIGGGDDSFNTFFSETGAGKHVPRAVFVDLEPTVIDEVR 79

Query: 59  SGPFGQIFRPDNFVFGQSGAGNNWAKGHYTE 89
           +G + Q+F P+  + G+  A NN+A+GHYT 
Sbjct: 80  TGTYRQLFHPEQLITGKEDAANNYARGHYTI 110


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

 Score =  147 bits (372), Expect = 2e-44
 Identities = 33/90 (36%), Positives = 48/90 (53%), Gaps = 1/90 (1%)

Query: 1   FWEIISDEHGIDPTGAY-HGDSDLQLERINVYYNEASGSKYVPRAILVDLEPGTMDAVRS 59
           FW +   EHG+   G    G +      + V++++    KYVPRA+LVDLEPG +  +  
Sbjct: 20  FWRLALREHGLTEAGTLKEGSNAAANSNMEVFFHKVRDGKYVPRAVLVDLEPGVIARIEG 79

Query: 60  GPFGQIFRPDNFVFGQSGAGNNWAKGHYTE 89
           G   Q+F   + V    GA NNWA+G+  E
Sbjct: 80  GDMSQLFDESSIVRKIPGAANNWARGYNVE 109


>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 =  147 bits (374), Expect = 3e-44
 Identities = 30/91 (32%), Positives = 54/91 (59%), Gaps = 3/91 (3%)

Query: 1   FWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVPRAILVDLEPGTMDAVRSG 60
           FW+ +  EHGI P       +    +R +V++ +A    Y+PRA+L+DLEP  + ++ + 
Sbjct: 21  FWKQLCAEHGISPEAIVEEFATEGTDRKDVFFYQADDEHYIPRAVLLDLEPRVIHSILNS 80

Query: 61  PFGQIFRPDNFVFGQ--SGAGNNWAKGHYTE 89
           P+ +++ P+N    +   GAGNNWA G +++
Sbjct: 81  PYAKLYNPENIYLSEHGGGAGNNWASG-FSQ 110


>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 =  142 bits (359), Expect = 4e-42
 Identities = 33/92 (35%), Positives = 48/92 (52%), Gaps = 4/92 (4%)

Query: 1   FWEIISDEHGIDPTGAYHGDSDLQLERINVYYN---EASGSKYVPRAILVDLEPGTMDAV 57
           FW+ +  EHGIDP               + +++   E+S   YVPRAI+VDLEP  +D V
Sbjct: 22  FWKTVCLEHGIDPLTGQTAPGVAPRGNWSSFFSKLGESSSGSYVPRAIMVDLEPSVIDNV 81

Query: 58  RSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTE 89
           ++   G +F P N +    GAG N+A G+   
Sbjct: 82  KATS-GSLFNPANLISRTEGAGGNFAVGYLGA 112


>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 = 32.5 bits (73), Expect = 0.014
 Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 18/85 (21%)

Query: 2   WEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASG-SKY-VPRAILVDLEPGTMDAVRS 59
              I  E    P+      + + +E+ +  YN+    +KY V R     L+P     +R 
Sbjct: 95  MSPIKTEQ-RQPSM----MTRMYIEQRDRLYNDNQVFAKYNVSR-----LQP--YLKLRQ 142

Query: 60  GPFGQIFRPDNFVF--GQSGAGNNW 82
                  RP   V   G  G+G  W
Sbjct: 143 AL--LELRPAKNVLIDGVLGSGKTW 165


>1fs1_B SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, leucine-rich
          repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A
          {Homo sapiens} SCOP: a.157.1.1 d.42.1.1 PDB: 1fs2_B
          1ldk_D
          Length = 141

 Score = 26.6 bits (58), Expect = 1.1
 Identities = 10/32 (31%), Positives = 15/32 (46%)

Query: 63 GQIFRPDNFVFGQSGAGNNWAKGHYTEPIPLP 94
          G+IF  D  +  QS       +    +P+PLP
Sbjct: 11 GEIFEVDVEIAKQSVTIKTMLEDLGMDPVPLP 42


>1k32_A Tricorn protease; protein degradation, substrate gating, serine
           protease, beta propeller, proteasome, hydrolase; 2.00A
           {Thermoplasma acidophilum} SCOP: b.36.1.3 b.68.7.1
           b.69.9.1 c.14.1.2 PDB: 1n6e_A 1n6d_A 1n6f_A*
          Length = 1045

 Score = 25.9 bits (56), Expect = 3.0
 Identities = 9/52 (17%), Positives = 16/52 (30%), Gaps = 1/52 (1%)

Query: 36  SGSKYVPRAILVDLEPGTMDAVRSGPFGQIFRPD-NFVFGQSGAGNNWAKGH 86
                +     V+ +      +  GP   I   D   V G++       KG+
Sbjct: 128 QPFSSMTCLYRVENDGINFVPLNLGPATHILFADGRRVIGRNTFELPHWKGY 179


>3scy_A Hypothetical bacterial 6-phosphogluconolactonase; 7-bladed
           beta-propeller, structural genomics, joint center F
           structural genomics, JCSG; HET: MSE; 1.50A {Bacteroides
           fragilis} PDB: 3fgb_A
          Length = 361

 Score = 25.1 bits (55), Expect = 5.2
 Identities = 15/61 (24%), Positives = 21/61 (34%), Gaps = 1/61 (1%)

Query: 11  IDPTGAYHGDSDLQLERINVYYNEASGSKYVPRAILVDLEPGTMDAVR-SGPFGQIFRPD 69
           I P G Y    DL  ++I+ +    + +       L    P        SGP   IF  D
Sbjct: 162 ITPDGKYLLADDLGTDQIHKFNINPNANADNKEKFLTKGTPEAFKVAPGSGPRHLIFNSD 221

Query: 70  N 70
            
Sbjct: 222 G 222


  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
   0.316    0.140    0.450 

Gapped
Lambda     K      H
   0.267   0.0645    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,738,512
Number of extensions: 93542
Number of successful extensions: 135
Number of sequences better than 10.0: 1
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 15
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
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: 42 (22.0 bits)
S2: 51 (23.6 bits)