BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 001355
         (1093 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
 pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
 pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
          Length = 854

 Score = 66.6 bits (161), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/166 (27%), Positives = 80/166 (48%), Gaps = 17/166 (10%)

Query: 693 KVGWQDEAICTISQAVSRWRIG---NGRDVGSNSKRGIWLAFLGPDKVGKKKIASALAEI 749
           +V  QDEAI  ++ A+ R R G     R +GS         FLGP  VGK ++A  LA  
Sbjct: 559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGS-------FLFLGPTGVGKTELAKTLAAT 611

Query: 750 VFGNKGKLIHVDVSSEQRVSQPNSIFDCQNIDFCDCKLRGKVLVDYIYQEFRSKPYSVVF 809
           +F  +  +I +D++        + +       +   +  G+     + +  R +PYSV+ 
Sbjct: 612 LFDTEEAMIRIDMTEYMEKHAVSRLIGAPP-GYVGYEEGGQ-----LTEAVRRRPYSVIL 665

Query: 810 LEDLDKAADPIVQSSLTKAISTGKFTDSYGRDVSISGMIFVATSTI 855
            ++++KA  P V + L + +  G+ TDS+GR V     + + TS +
Sbjct: 666 FDEIEKA-HPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL 710


>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
 pdb|3PXI|B Chain B, Structure Of Meca108:clpc
 pdb|3PXI|C Chain C, Structure Of Meca108:clpc
          Length = 758

 Score = 65.9 bits (159), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 42/125 (33%), Positives = 64/125 (51%), Gaps = 21/125 (16%)

Query: 731 FLGPDKVGKKKIASALAEIVFGNKGKLIHVDVSSEQRVSQPNSIFDCQNIDFCDCKLRGK 790
           FLGP  VGK ++A ALAE +FG++  +I +D+S      + +S    Q            
Sbjct: 526 FLGPTGVGKTELARALAESIFGDEESMIRIDMSE---YMEKHSTSGGQ------------ 570

Query: 791 VLVDYIYQEFRSKPYSVVFLEDLDKAADPIVQSSLTKAISTGKFTDSYGRDVSISGMIFV 850
                + ++ R KPYSVV L+ ++K A P V + L + +  G+ TDS GR V     I +
Sbjct: 571 -----LTEKVRRKPYSVVLLDAIEK-AHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILI 624

Query: 851 ATSTI 855
            TS +
Sbjct: 625 MTSNV 629


>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
          Length = 308

 Score = 61.6 bits (148), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 46/167 (27%), Positives = 80/167 (47%), Gaps = 17/167 (10%)

Query: 692 EKVGWQDEAICTISQAVSRWRIG---NGRDVGSNSKRGIWLAFLGPDKVGKKKIASALAE 748
           ++V  QDEAI  ++ A+ R R G     R +GS         FLGP  VGK ++A  LA 
Sbjct: 14  KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGS-------FLFLGPTGVGKTELAKTLAA 66

Query: 749 IVFGNKGKLIHVDVSSEQRVSQPNSIFDCQNIDFCDCKLRGKVLVDYIYQEFRSKPYSVV 808
            +F  +  +I +D++        + +       +   +  G+     + +  R +PYSV+
Sbjct: 67  TLFDTEEAMIRIDMTEYMEKHAVSRLIGAPP-GYVGYEEGGQ-----LTEAVRRRPYSVI 120

Query: 809 FLEDLDKAADPIVQSSLTKAISTGKFTDSYGRDVSISGMIFVATSTI 855
             + ++KA  P V + L + +  G+ TDS+GR V     + + TS +
Sbjct: 121 LFDAIEKA-HPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL 166


>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
 pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
          Length = 311

 Score = 60.1 bits (144), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 48/167 (28%), Positives = 78/167 (46%), Gaps = 17/167 (10%)

Query: 692 EKVGWQDEAICTISQAVSRWRIG---NGRDVGSNSKRGIWLAFLGPDKVGKKKIASALAE 748
           ++V  QDEAI  ++ A+ R R G     R +GS         FLGP  VGK ++A  LA 
Sbjct: 17  KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGS-------FLFLGPTGVGKTELAKTLAA 69

Query: 749 IVFGNKGKLIHVDVSSEQRVSQPNSIFDCQNIDFCDCKLRGKVLVDYIYQEFRSKPYSVV 808
            +F  +   I +D  +E       S        +   +  G+     + +  R +PYSV+
Sbjct: 70  TLFDTEEAXIRID-XTEYXEKHAVSRLIGAPPGYVGYEEGGQ-----LTEAVRRRPYSVI 123

Query: 809 FLEDLDKAADPIVQSSLTKAISTGKFTDSYGRDVSISGMIFVATSTI 855
             + ++KA  P V + L + +  G+ TDS+GR V     + + TS +
Sbjct: 124 LFDAIEKA-HPDVFNILLQXLDDGRLTDSHGRTVDFRNTVIIXTSNL 169


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.317    0.133    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,765,579
Number of Sequences: 62578
Number of extensions: 1250137
Number of successful extensions: 2852
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 2841
Number of HSP's gapped (non-prelim): 5
length of query: 1093
length of database: 14,973,337
effective HSP length: 109
effective length of query: 984
effective length of database: 8,152,335
effective search space: 8021897640
effective search space used: 8021897640
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)