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= 029649
         (190 letters)

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

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



>pdb|3M6E|A Chain A, F80a Mutant Of The Urea Transporter From Desulfovibrio
           Vulgaris
          Length = 340

 Score = 30.0 bits (66), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 33/80 (41%), Gaps = 10/80 (12%)

Query: 112 KFWYALTKAFVVAFFLTFFSVLDVPV-----FWPILLCYWIFLFVLTMKRQILHMIKYKY 166
            F YAL    + A     FSVL  P+      WP ++  W+FLF  +M R I  +   K 
Sbjct: 266 TFLYALGCMVLGAIATGAFSVLLSPIGMPALTWPFIVVTWLFLFAGSMFRNIAQVPTEKA 325

Query: 167 VPFNIGKPRYGKKSSENSSR 186
                G P    +S    SR
Sbjct: 326 -----GTPEDNLRSLAIGSR 340


>pdb|3K3F|A Chain A, Crystal Structure Of The Urea Transporter From
           Desulfovibrio Vulgaris
 pdb|3K3G|A Chain A, Crystal Structure Of The Urea Transporter From
           Desulfovibrio Vulgaris Bound To 1,3-Dimethylurea
          Length = 340

 Score = 30.0 bits (66), Expect = 0.82,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 33/80 (41%), Gaps = 10/80 (12%)

Query: 112 KFWYALTKAFVVAFFLTFFSVLDVPV-----FWPILLCYWIFLFVLTMKRQILHMIKYKY 166
            F YAL    + A     FSVL  P+      WP ++  W+FLF  +M R I  +   K 
Sbjct: 266 TFLYALGCMVLGAIATGAFSVLLSPIGMPALTWPFIVVTWLFLFAGSMFRNIAQVPTEKA 325

Query: 167 VPFNIGKPRYGKKSSENSSR 186
                G P    +S    SR
Sbjct: 326 -----GTPEDNLRSLAIGSR 340


>pdb|3ME1|A Chain A, Crystal Structure Of The Desulfovibro Vulgaris Urea
           Transporter In The P3(1) Space Group At 3.86
 pdb|3ME1|B Chain B, Crystal Structure Of The Desulfovibro Vulgaris Urea
           Transporter In The P3(1) Space Group At 3.86
 pdb|3ME1|C Chain C, Crystal Structure Of The Desulfovibro Vulgaris Urea
           Transporter In The P3(1) Space Group At 3.86
          Length = 335

 Score = 30.0 bits (66), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 33/80 (41%), Gaps = 10/80 (12%)

Query: 112 KFWYALTKAFVVAFFLTFFSVLDVPV-----FWPILLCYWIFLFVLTMKRQILHMIKYKY 166
            F YAL    + A     FSVL  P+      WP ++  W+FLF  +M R I  +   K 
Sbjct: 261 TFLYALGCMVLGAIATGAFSVLLSPIGMPALTWPFIVVTWLFLFAGSMFRNIAQVPTEKA 320

Query: 167 VPFNIGKPRYGKKSSENSSR 186
                G P    +S    SR
Sbjct: 321 -----GTPEDNLRSLAIGSR 335


>pdb|1R70|B Chain B, Model Of Human Iga2 Determined By Solution Scattering,
           Curve Fitting And Homology Modelling
 pdb|1R70|D Chain D, Model Of Human Iga2 Determined By Solution Scattering,
           Curve Fitting And Homology Modelling
 pdb|3CM9|A Chain A, Solution Structure Of Human Siga2
 pdb|3CM9|B Chain B, Solution Structure Of Human Siga2
 pdb|3CM9|C Chain C, Solution Structure Of Human Siga2
 pdb|3CM9|D Chain D, Solution Structure Of Human Siga2
          Length = 462

 Score = 28.9 bits (63), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 1/60 (1%)

Query: 80  SVDPELEALNTASLPTKGSDEFKPFVRRLPEFKFWYALTKAFVVAFFLTFFSVLDVPVFW 139
           +  PEL+   TA++ TK  + F+P V  LP      AL +   +      FS  DV V W
Sbjct: 315 AAHPELKTPLTANI-TKSGNTFRPEVHLLPPPSEELALNELVTLTCLARGFSPKDVLVRW 373


  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
   0.327    0.141    0.447 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,179,457
Number of Sequences: 62578
Number of extensions: 177426
Number of successful extensions: 329
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 8
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)