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= psy17042
         (261 letters)

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

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



>pdb|2FYF|A Chain A, Structure Of A Putative Phosphoserine Aminotransferase
           From Mycobacterium Tuberculosis
 pdb|2FYF|B Chain B, Structure Of A Putative Phosphoserine Aminotransferase
           From Mycobacterium Tuberculosis
 pdb|3VOM|A Chain A, Structure Of A Putative Phosphoserine Aminotransferase
           From Mycobacterium Tuberculosis
 pdb|3VOM|B Chain B, Structure Of A Putative Phosphoserine Aminotransferase
           From Mycobacterium Tuberculosis
          Length = 398

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 14/102 (13%)

Query: 26  GLMLNRDLQLSYRDFAQDLLSTCDQNPKIADIPIQFKEPIYGSNDP-SFTDFVAPGVILT 84
           GL+  R L L+Y +F+    S   +NP +        EPI  ++DP S  +      +  
Sbjct: 116 GLIDKRSLHLTYGEFSAKFASAVSKNPFVG-------EPIIITSDPGSAPEPQTDPSVDV 168

Query: 85  IVFFLAVALTSSALIIERMEG------LLDRSWVAGVTPLEI 120
           I +      T  A+ + R EG      ++D +  AG  P++I
Sbjct: 169 IAWAHNETSTGVAVAVRRPEGSDDALVVIDATSGAGGLPVDI 210


>pdb|2R6G|F Chain F, The Crystal Structure Of The E. Coli Maltose Transporter
 pdb|3PUY|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
           Transporter Complex Bound To Amp-Pnp After Crystal
           Soaking Of The Pretranslocation State
 pdb|3PUZ|F Chain F, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
           Transporter Complex Bound To Amp-Pnp
 pdb|3PV0|F Chain F, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
           Transporter Complex Without Nucleotide
 pdb|3PUV|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
           Transporter Complex Bound To Adp-Vo4
 pdb|3PUW|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
           Transporter Complex Bound To Adp-Alf4
 pdb|3PUX|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
           Transporter Complex Bound To Adp-Bef3
 pdb|3RLF|F Chain F, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
           TRANSPORTER Complex In An Outward-Facing Conformation
           Bound To Mgamppnp
          Length = 514

 Score = 28.1 bits (61), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 42/90 (46%), Gaps = 13/90 (14%)

Query: 76  FVAPG-------VILTIVFFLAVALT----SSALIIER-MEGLLDRSWVAGVTPLEILF- 122
           +V PG       V+  +V  +A+A T    ++ L  ER  E LLDRSW AG T    L+ 
Sbjct: 67  YVYPGMAGMGLFVLFPLVCTIAIAFTNYSSTNQLTFERAQEVLLDRSWQAGKTYNFGLYP 126

Query: 123 SHVITQFVVMCGQTALVLIFMIFVFGVECK 152
           +    Q  +  G+T    +   F FG E K
Sbjct: 127 AGDEWQLALSDGETGKNYLSDAFKFGGEQK 156


>pdb|3FH6|F Chain F, Crystal Structure Of The Resting State Maltose Transporter
           From E. Coli
 pdb|3FH6|H Chain H, Crystal Structure Of The Resting State Maltose Transporter
           From E. Coli
          Length = 480

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 42/90 (46%), Gaps = 13/90 (14%)

Query: 76  FVAPG-------VILTIVFFLAVALT----SSALIIER-MEGLLDRSWVAGVTPLEILF- 122
           +V PG       V+  +V  +A+A T    ++ L  ER  E LLDRSW AG T    L+ 
Sbjct: 33  YVYPGMAGMGLFVLFPLVCTIAIAFTNYSSTNQLTFERAQEVLLDRSWQAGKTYNFGLYP 92

Query: 123 SHVITQFVVMCGQTALVLIFMIFVFGVECK 152
           +    Q  +  G+T    +   F FG E K
Sbjct: 93  AGDEWQLALSDGETGKNYLSDAFKFGGEQK 122


>pdb|2LA3|A Chain A, The Nmr Structure Of The Protein Np_344798.1 Reveals A
          Cca-Adding Enzyme Head Domain
          Length = 191

 Score = 27.3 bits (59), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 12/73 (16%)

Query: 5  NTLKTKKEICEVLHQECDQQIGLMLNRDLQL--------SYRDFAQDLLSTCDQNP--KI 54
          NT+K K+EI E   +  D    L + RDL L        S R+F  +LLS  D++P    
Sbjct: 3  NTVKNKQEILEAFRESPDMMAILTIIRDLGLKDSWLAAGSVRNFIWNLLS--DKSPFDHE 60

Query: 55 ADIPIQFKEPIYG 67
           DI + F +P + 
Sbjct: 61 TDIDVIFFDPDFS 73


  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
   0.330    0.145    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,773,939
Number of Sequences: 62578
Number of extensions: 242175
Number of successful extensions: 815
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 812
Number of HSP's gapped (non-prelim): 7
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.9 bits)