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= 011333
         (488 letters)

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

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



>pdb|3TC9|A Chain A, Crystal Structure Of A Hypothetical Hydrolase (Bt_3476)
           From Bacteroides Thetaiotaomicron Vpi-5482 At 2.23 A
           Resolution
 pdb|3TC9|B Chain B, Crystal Structure Of A Hypothetical Hydrolase (Bt_3476)
           From Bacteroides Thetaiotaomicron Vpi-5482 At 2.23 A
           Resolution
          Length = 430

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 55/119 (46%), Gaps = 12/119 (10%)

Query: 119 PKLVAGSAEGYSGHVDGKPREARMNHPKGLTV---------DDRGNIYIADTMNMAIRKI 169
           P +V G  +G    VDG  ++AR + P+  T           D  + Y  D  N  IR +
Sbjct: 309 PYIVCGQ-QGAKDWVDGVGKKARXHAPRQGTFVKNPAYKGSSDEYDFYFCDRENHCIRIL 367

Query: 170 SDSG-VTTIAGGKWGRGGGHVDGP-SEDAKFSNDFDVVYIGSSCSLLVIDRGNRAIREI 226
           +  G VTT AG       G+ DG   ++A+F++   +VY        + DR NR IR+I
Sbjct: 368 TPQGRVTTFAGRGSNGTSGYNDGDLRQEARFNHPEGIVYDEERECFFIGDRENRRIRKI 426


>pdb|3HRP|A Chain A, Crystal Structure Of Structural Genomics Protein Of
           Unknown Function (np_812590.1) From Bacteroides
           Thetaiotaomicron Vpi-5482 At 1.70 A Resolution
          Length = 409

 Score = 42.0 bits (97), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 46/99 (46%), Gaps = 6/99 (6%)

Query: 134 DGKPREARMNHPKGLTVDDRGNIYIADTMN-MAIRK--ISDSGVTTIAGGKWGRGGGHVD 190
           DG   EA    P G TVD+ GN YI D      +RK  I D  V+T+AG         +D
Sbjct: 314 DGLREEALFAQPNGXTVDEDGNFYIVDGFKGYCLRKLDILDGYVSTVAGQV--DVASQID 371

Query: 191 GPSEDAKFSNDFDVVYIGSSCSLLVIDRGNRAIREIQLH 229
           G   +A F+  +D+ Y G      + +   +AIR+  + 
Sbjct: 372 GTPLEATFNYPYDICYDGEG-GYWIAEAWGKAIRKYAVE 409



 Score = 35.8 bits (81), Expect = 0.052,   Method: Compositional matrix adjust.
 Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 122 VAGSAEGYSGHVDGKPREARMNHPKGLTVDDRGNIYIADTMNMAIRK 168
           VAG  +  +  +DG P EA  N+P  +  D  G  +IA+    AIRK
Sbjct: 360 VAGQVD-VASQIDGTPLEATFNYPYDICYDGEGGYWIAEAWGKAIRK 405


>pdb|1RWI|B Chain B, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
 pdb|1RWI|A Chain A, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
 pdb|1RWL|A Chain A, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
          Length = 270

 Score = 33.1 bits (74), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 19/28 (67%)

Query: 142 MNHPKGLTVDDRGNIYIADTMNMAIRKI 169
           +N P G+ VD+ GN+Y+ DT N  + K+
Sbjct: 149 LNDPDGVAVDNSGNVYVTDTDNNRVVKL 176



 Score = 32.3 bits (72), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 21/29 (72%)

Query: 142 MNHPKGLTVDDRGNIYIADTMNMAIRKIS 170
           +N+P+GL VD +G +Y+AD  N  + K++
Sbjct: 107 LNYPEGLAVDTQGAVYVADRGNNRVVKLA 135


>pdb|1Q7F|A Chain A, Brain Tumor Nhl Domain
 pdb|1Q7F|B Chain B, Brain Tumor Nhl Domain
          Length = 286

 Score = 30.0 bits (66), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 17/67 (25%), Positives = 30/67 (44%)

Query: 139 EARMNHPKGLTVDDRGNIYIADTMNMAIRKISDSGVTTIAGGKWGRGGGHVDGPSEDAKF 198
           E +   P G+ V+ + +I +ADT N  I+     G      G+ G+    +  P+  A  
Sbjct: 26  EGQFTEPSGVAVNAQNDIIVADTNNHRIQIFDKEGRFKFQFGECGKRDSQLLYPNRVAVV 85

Query: 199 SNDFDVV 205
            N  D++
Sbjct: 86  RNSGDII 92


  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
   0.316    0.134    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,483,214
Number of Sequences: 62578
Number of extensions: 519329
Number of successful extensions: 1256
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1240
Number of HSP's gapped (non-prelim): 18
length of query: 488
length of database: 14,973,337
effective HSP length: 103
effective length of query: 385
effective length of database: 8,527,803
effective search space: 3283204155
effective search space used: 3283204155
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)