RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8716
         (141 letters)



>3mkr_B Coatomer subunit alpha; tetratricopeptide repeats (TPR),
           beta-hairpin, alpha-solenoi transport protein; 2.60A
           {Bos taurus}
          Length = 320

 Score = 27.7 bits (61), Expect = 1.4
 Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 4/45 (8%)

Query: 26  PIDDFELLCWSMG--NKGKSYILCPYCYNNPPYRDMKKGSGCNVC 68
             + F++   S     +GK    CP       Y    KG  C V 
Sbjct: 258 MHNPFDICAASYRPIYRGKPVEKCPLS--GACYSPEFKGQICKVT 300


>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein
           complex I, protein TRAN; 2.90A {Saccharomyces
           cerevisiae} PDB: 3mv3_A
          Length = 325

 Score = 27.0 bits (59), Expect = 2.6
 Identities = 3/29 (10%), Positives = 7/29 (24%), Gaps = 2/29 (6%)

Query: 40  KGKSYILCPYCYNNPPYRDMKKGSGCNVC 68
           +    +  P       Y   +K     + 
Sbjct: 283 EDTPSVSDPLT--GSKYVITEKDKIDRIA 309


>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
          transcription factor, DNA-binding, DNA-directed RNA
          polymerase; 4.30A {Saccharomyces cerevisiae}
          Length = 197

 Score = 26.6 bits (58), Expect = 2.7
 Identities = 10/30 (33%), Positives = 11/30 (36%), Gaps = 6/30 (20%)

Query: 47 CPYCYNNPP--YRDMKKGSGCNVCTHPTCG 74
          CP C   PP       +G    VC    CG
Sbjct: 24 CPECKVYPPKIVERFSEGD--VVCA--LCG 49


>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion
           ATPase, ATP-binding, FIMB nucleotide-binding, transport;
           HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB:
           3jvu_A*
          Length = 356

 Score = 26.8 bits (60), Expect = 2.7
 Identities = 5/13 (38%), Positives = 8/13 (61%)

Query: 113 IIHVFPDAQKVQV 125
           ++ VFP  +K  V
Sbjct: 240 VVDVFPAEEKAMV 252


>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase,
           hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex
           aeolicus} PDB: 2eww_A* 2gsz_A*
          Length = 372

 Score = 26.8 bits (60), Expect = 2.9
 Identities = 6/13 (46%), Positives = 9/13 (69%)

Query: 113 IIHVFPDAQKVQV 125
           I+ +FP  Q+ QV
Sbjct: 253 IVDIFPLNQQEQV 265


>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal
           domain PILT, protein transport; 1.87A {Aquifex aeolicus}
          Length = 261

 Score = 26.0 bits (58), Expect = 5.1
 Identities = 6/13 (46%), Positives = 9/13 (69%)

Query: 113 IIHVFPDAQKVQV 125
           I+ +FP  Q+ QV
Sbjct: 142 IVDIFPLNQQEQV 154


>4dx5_A Acriflavine resistance protein B; multidrug efflux protein,
           membrane protein, transpor; HET: LMT OCT D10 HEX D12 MIY
           C14 LMU DD9 UND GOL; 1.90A {Escherichia coli} PDB:
           2hrt_A* 2gif_A* 4dx7_A* 4dx6_A* 3noc_A* 1oy6_A* 1oy9_A*
           1oyd_A* 1oy8_A* 1oye_A 2rdd_A* 2w1b_A* 3d9b_A 2i6w_A*
           3nog_A* 1t9x_A* 1t9t_A* 1t9v_A* 1t9w_A* 1t9u_A* ...
          Length = 1057

 Score = 26.0 bits (58), Expect = 5.9
 Identities = 6/12 (50%), Positives = 7/12 (58%)

Query: 10  SPLAATGKAMSQ 21
            P  AT K+M Q
Sbjct: 426 PPKEATRKSMGQ 437


>3sqr_A Laccase; multicopper oxidase, glycosylation, oxidoreductase; HET:
           NAG BMA MAN; 1.67A {Botrytis aclada}
          Length = 580

 Score = 25.5 bits (56), Expect = 9.1
 Identities = 7/30 (23%), Positives = 10/30 (33%)

Query: 29  DFELLCWSMGNKGKSYILCPYCYNNPPYRD 58
           DF ++               +   NPP RD
Sbjct: 471 DFFIVAQETDVFNSDESPAKFNLVNPPRRD 500


  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    0.137    0.465 

Gapped
Lambda     K      H
   0.267   0.0436    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,130,990
Number of extensions: 116554
Number of successful extensions: 336
Number of sequences better than 10.0: 1
Number of HSP's gapped: 331
Number of HSP's successfully gapped: 39
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
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 (22.0 bits)
S2: 52 (24.5 bits)