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= psy10709
         (348 letters)

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

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



>pdb|2K3J|A Chain A, The Solution Structure Of Human Mia40
          Length = 146

 Score =  119 bits (298), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 56/104 (53%), Positives = 68/104 (65%), Gaps = 5/104 (4%)

Query: 208 CQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGP 262
           C++EGKD IIF TKEDH     A                   +G+INWNCPCLGGMA+GP
Sbjct: 8   CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMASGP 67

Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           CG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q
Sbjct: 68  CGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQ 111



 Score = 95.1 bits (235), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 54/84 (64%), Gaps = 5/84 (5%)

Query: 1  MSTCQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMA 55
          MS C++EGKD IIF TKEDH     A                   +G+INWNCPCLGGMA
Sbjct: 5  MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMA 64

Query: 56 TGPCGVQFREAFSCFHYSTDEPKG 79
          +GPCG QF+ AFSCFHYST+E KG
Sbjct: 65 SGPCGEQFKSAFSCFHYSTEEIKG 88


>pdb|2L0Y|A Chain A, Complex Hmia40-Hcox17
          Length = 146

 Score =  116 bits (290), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/104 (52%), Positives = 67/104 (64%), Gaps = 5/104 (4%)

Query: 208 CQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGP 262
           C++EGKD IIF TKEDH     A                   +G+INWN PCLGGMA+GP
Sbjct: 8   CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNSPCLGGMASGP 67

Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           CG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q
Sbjct: 68  CGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQ 111



 Score = 91.7 bits (226), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 53/84 (63%), Gaps = 5/84 (5%)

Query: 1  MSTCQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMA 55
          MS C++EGKD IIF TKEDH     A                   +G+INWN PCLGGMA
Sbjct: 5  MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNSPCLGGMA 64

Query: 56 TGPCGVQFREAFSCFHYSTDEPKG 79
          +GPCG QF+ AFSCFHYST+E KG
Sbjct: 65 SGPCGEQFKSAFSCFHYSTEEIKG 88


>pdb|2ZXT|A Chain A, Crystal Structure Of Tim40MIA40, A DISULFIDE RELAY SYSTEM
           IN Mitochondria, Solved As Mbp Fusion Protein
          Length = 465

 Score = 94.7 bits (234), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 38/61 (62%), Positives = 46/61 (75%)

Query: 246 GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYK 305
           G INW+CPCLGGMA GPCG +F+ AFSCF YS  EPKG++C E F+ MQDC  +YP  Y 
Sbjct: 390 GEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQDCFRKYPEHYA 449

Query: 306 Q 306
           +
Sbjct: 450 E 450



 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/38 (73%), Positives = 31/38 (81%)

Query: 42  GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKG 79
           G INW+CPCLGGMA GPCG +F+ AFSCF YS  EPKG
Sbjct: 390 GEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKG 427


>pdb|3A3C|A Chain A, Crystal Structure Of Tim40MIA40 FUSING MBP, C296S AND
           C298S Mutant
          Length = 451

 Score = 88.6 bits (218), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 36/61 (59%), Positives = 44/61 (72%)

Query: 246 GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYK 305
           G INW+ P LGGMA GPCG +F+ AFSCF YS  EPKG++C E F+ MQDC  +YP  Y 
Sbjct: 388 GEINWDSPSLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQDCFRKYPEHYA 447

Query: 306 Q 306
           +
Sbjct: 448 E 448



 Score = 63.5 bits (153), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 26/38 (68%), Positives = 29/38 (76%)

Query: 42  GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKG 79
           G INW+ P LGGMA GPCG +F+ AFSCF YS  EPKG
Sbjct: 388 GEINWDSPSLGGMAHGPCGEEFKSAFSCFVYSEAEPKG 425


  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
   0.322    0.135    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,442,764
Number of Sequences: 62578
Number of extensions: 286400
Number of successful extensions: 405
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 393
Number of HSP's gapped (non-prelim): 8
length of query: 348
length of database: 14,973,337
effective HSP length: 100
effective length of query: 248
effective length of database: 8,715,537
effective search space: 2161453176
effective search space used: 2161453176
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)