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= 028527
         (208 letters)

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

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



>pdb|2YNM|D Chain D, Structure Of The Adpxalf3-stabilized Transition State Of
           The Nitrogenase-like Dark-operative Protochlorophyllide
           Oxidoreductase Complex From Prochlorococcus Marinus With
           Its Substrate Protochlorophyllide A
          Length = 530

 Score = 30.0 bits (66), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 36/118 (30%), Positives = 48/118 (40%), Gaps = 23/118 (19%)

Query: 34  RDYGGDFVQMRLSY-----SPFAPLVLFMIEWMDYSCTDTV----PSYL--GL-LNILVY 81
           RD GGD  ++   +       F P  L + E    SCT  +    P  L  G+ LNI + 
Sbjct: 63  RDLGGDTAELVKGHIFEAVERFKPEALLVGE----SCTAELIQDQPGSLAKGMGLNIPIV 118

Query: 82  KVYVDGMPALSSKERKATLREFYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKRV 139
            +    +PA S KE       FY +I    R L  E SE   N+ +    E   R RV
Sbjct: 119 SLE---LPAYSKKENWGASETFYQLI----RGLLKEISEDSSNNAKQSWQEEGRRPRV 169


>pdb|2B7J|A Chain A, Crystal Structure Of Yeast Sco1 With Copper Bound
 pdb|2B7J|B Chain B, Crystal Structure Of Yeast Sco1 With Copper Bound
 pdb|2B7J|C Chain C, Crystal Structure Of Yeast Sco1 With Copper Bound
 pdb|2B7J|D Chain D, Crystal Structure Of Yeast Sco1 With Copper Bound
 pdb|2B7K|A Chain A, Crystal Structure Of Yeast Sco1
 pdb|2B7K|B Chain B, Crystal Structure Of Yeast Sco1
 pdb|2B7K|C Chain C, Crystal Structure Of Yeast Sco1
 pdb|2B7K|D Chain D, Crystal Structure Of Yeast Sco1
          Length = 200

 Score = 28.9 bits (63), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 16/101 (15%)

Query: 36  YGGDFVQMRLSYSPFAPLVLFMIEWMDYS-CTDTVPS---YLGL-LNILVYKVYVDGMPA 90
           YG +F +  L       L  F I +  +S C D  P     LGL LN L  K  +   P 
Sbjct: 30  YGNEFTEKNL-------LGKFSIIYFGFSNCPDICPDELDKLGLWLNTLSSKYGITLQPL 82

Query: 91  L----SSKERKATLREFYAIIYPSLRQLESEFSELEDNSKR 127
                 +++  A L+E+ +  +PS+  L   F E+++  K+
Sbjct: 83  FITCDPARDSPAVLKEYLSDFHPSILGLTGTFDEVKNACKK 123


>pdb|3CE2|A Chain A, Crystal Structure Of Putative Peptidase From Chlamydophila
           Abortus
          Length = 618

 Score = 28.1 bits (61), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 73  LGLLNILVYKVYVDGMPALSSKERKATLREFYAIIYPSLRQLESEF 118
           L L +   Y VY    P   SKE+K T +E   +IY SL  L +E+
Sbjct: 306 LNLKDFHFYDVYA---PLSQSKEKKYTFQEAVDLIYTSLSPLGTEY 348


>pdb|3EDV|A Chain A, Crystal Structure Of Repeats 14-16 Of Beta2-Spectrin
 pdb|3EDV|B Chain B, Crystal Structure Of Repeats 14-16 Of Beta2-Spectrin
          Length = 323

 Score = 27.3 bits (59), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 152 RNDECGICMENCTKMVTRKHFSLERIPDKYFS 183
           RND    C+E    ++ RKH++ E I +K   
Sbjct: 271 RNDSFTTCIELGKSLLARKHYASEEIKEKLLQ 302


  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
   0.320    0.134    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,671,118
Number of Sequences: 62578
Number of extensions: 211438
Number of successful extensions: 540
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 538
Number of HSP's gapped (non-prelim): 6
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)