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= 011429
         (486 letters)

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

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



>pdb|2ZU0|A Chain A, Crystal Structure Of Sufc-Sufd Complex Involved In The
           Iron- Sulfur Cluster Biosynthesis
 pdb|2ZU0|B Chain B, Crystal Structure Of Sufc-Sufd Complex Involved In The
           Iron- Sulfur Cluster Biosynthesis
          Length = 423

 Score =  122 bits (307), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 62/169 (36%), Positives = 106/169 (62%), Gaps = 5/169 (2%)

Query: 308 GGKLSRHNVHVQQLGPDTETELSSFHLLVSDQTQDLHSRLLLDHPRGYC--RQLHKCIVA 365
           GG + RHN   Q  G ++   ++S  + V ++  D  +R  L+H +G+C  RQLHK IV+
Sbjct: 249 GGAVLRHNTSTQLNGENSTLRINSLAMPVKNEVCD--TRTWLEHNKGFCNSRQLHKTIVS 306

Query: 366 HSLGQAVFDGNVKVNRYAQQTDAGQLTRSLLLEPRATVNVKPNLQIIADDVKCSHGAAIS 425
              G+AVF+G + V ++A +TD      +LL+   A V+ KP L+I ADDVKCSHGA + 
Sbjct: 307 DK-GRAVFNGLINVAQHAIKTDGQMTNNNLLMGKLAEVDTKPQLEIYADDVKCSHGATVG 365

Query: 426 DLEESQLFYFQARGIDLETARKALVFSFGAEVIERFPYPSIRNQVVSHV 474
            +++ Q+FY ++RGI+ + A++ ++++F AE+ E      ++ QV++ +
Sbjct: 366 RIDDEQIFYLRSRGINQQDAQQMIIYAFAAELTEALRDEGLKQQVLARI 414


>pdb|1VH4|A Chain A, Crystal Structure Of A Stabilizer Of Iron Transporter
 pdb|1VH4|B Chain B, Crystal Structure Of A Stabilizer Of Iron Transporter
          Length = 435

 Score =  122 bits (307), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 62/169 (36%), Positives = 106/169 (62%), Gaps = 5/169 (2%)

Query: 308 GGKLSRHNVHVQQLGPDTETELSSFHLLVSDQTQDLHSRLLLDHPRGYC--RQLHKCIVA 365
           GG + RHN   Q  G ++   ++S  + V ++  D  +R  L+H +G+C  RQLHK IV+
Sbjct: 251 GGAVLRHNTSTQLNGENSTLRINSLAMPVKNEVCD--TRTWLEHNKGFCNSRQLHKTIVS 308

Query: 366 HSLGQAVFDGNVKVNRYAQQTDAGQLTRSLLLEPRATVNVKPNLQIIADDVKCSHGAAIS 425
              G+AVF+G + V ++A +TD      +LL+   A V+ KP L+I ADDVKCSHGA + 
Sbjct: 309 DK-GRAVFNGLINVAQHAIKTDGQMTNNNLLMGKLAEVDTKPQLEIYADDVKCSHGATVG 367

Query: 426 DLEESQLFYFQARGIDLETARKALVFSFGAEVIERFPYPSIRNQVVSHV 474
            +++ Q+FY ++RGI+ + A++ ++++F AE+ E      ++ QV++ +
Sbjct: 368 RIDDEQIFYLRSRGINQQDAQQMIIYAFAAELTEALRDEGLKQQVLARI 416


>pdb|4DN7|A Chain A, Crystal Structure Of Putative Abc Transporter, Atp-Binding
           Protein From Methanosarcina Mazei Go1
 pdb|4DN7|B Chain B, Crystal Structure Of Putative Abc Transporter, Atp-Binding
           Protein From Methanosarcina Mazei Go1
          Length = 429

 Score = 34.3 bits (77), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 32/61 (52%)

Query: 393 RSLLLEPRATVNVKPNLQIIADDVKCSHGAAISDLEESQLFYFQARGIDLETARKALVFS 452
           + L+L  + +    P L+   DD++ +H AA+  + + Q+ Y  ARG+  + A   ++  
Sbjct: 342 KGLVLTDKGSQLAIPILEANVDDIELTHEAAVGKIAKDQVEYLXARGLTEDEAVGXIIRG 401

Query: 453 F 453
           F
Sbjct: 402 F 402


  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
   0.318    0.133    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,734,627
Number of Sequences: 62578
Number of extensions: 474019
Number of successful extensions: 1131
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1126
Number of HSP's gapped (non-prelim): 3
length of query: 486
length of database: 14,973,337
effective HSP length: 103
effective length of query: 383
effective length of database: 8,527,803
effective search space: 3266148549
effective search space used: 3266148549
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: 53 (25.0 bits)