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= 046221
         (572 letters)

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

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



>pdb|1V9P|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase
 pdb|1V9P|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase
          Length = 584

 Score = 32.3 bits (72), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 2/50 (4%)

Query: 109 GLKNPYLVSCNAIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVT--MLTV 156
           G K P+L +    V G   N  +++ VL+F   RG G V   VT  +LT+
Sbjct: 106 GRKRPFLYTVEHKVDGLSVNLYYEEGVLVFGATRGDGEVGEEVTQNLLTI 155


>pdb|2R8Q|A Chain A, Structure Of Lmjpdeb1 In Complex With Ibmx
 pdb|2R8Q|B Chain B, Structure Of Lmjpdeb1 In Complex With Ibmx
          Length = 359

 Score = 30.0 bits (66), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 7/74 (9%)

Query: 179 LGLILDVSVNNSVLDMYSCLMDL----DAAIQIFREMECKDVISWTRMM---GLFVDFEY 231
           LG++   S NNSVL+++ C + +    D A  +F  +  +DV    R +    L  D   
Sbjct: 159 LGILSSASGNNSVLEVHHCSLAIEILSDPAADVFEGLSGQDVAYAYRALIDCVLATDMAK 218

Query: 232 AGDALKIFREMRKS 245
             DAL  F E+  S
Sbjct: 219 HADALSRFTELATS 232


>pdb|1P7Z|A Chain A, Crystal Structure Of The D181s Variant Of Catalase Hpii
           From E. Coli
 pdb|1P7Z|B Chain B, Crystal Structure Of The D181s Variant Of Catalase Hpii
           From E. Coli
 pdb|1P7Z|C Chain C, Crystal Structure Of The D181s Variant Of Catalase Hpii
           From E. Coli
 pdb|1P7Z|D Chain D, Crystal Structure Of The D181s Variant Of Catalase Hpii
           From E. Coli
          Length = 753

 Score = 29.6 bits (65), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 12/102 (11%)

Query: 11  LLSNYFKSGKIKEAENLFDEIPEKNVVSWSIVIHGYSINGFHEKSMKAFSHMMLSGLL-- 68
           LL ++    KI   ++  + IPE+ V +     HGY       +  K+ S +  +  L  
Sbjct: 104 LLEDFILREKITHFDH--ERIPERIVHARGSAAHGYF------QPYKSLSDITKADFLSD 155

Query: 69  PNSFTMVGVLVAA--AGLQNLELARSIHGLMVKFGLESDLFE 108
           PN  T V V  +    G  + +  RSI G   KF  E  +F+
Sbjct: 156 PNKITPVFVRFSTVQGGAGSADTVRSIRGFATKFYTEEGIFD 197


>pdb|2ZZM|A Chain A, The Complex Structure Of Atrm5 And Trnaleu
          Length = 336

 Score = 29.6 bits (65), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 31/130 (23%), Positives = 56/130 (43%), Gaps = 8/130 (6%)

Query: 105 DLFEGLKNPYLVSCN---AIVAGFINNKLFQQAVLLFNFFRGSGLVPNAVTMLTVIRGCV 161
           D+F G+  P+ ++C     I A  IN    +   LL    + + L    + +L+ +R   
Sbjct: 201 DMFAGV-GPFSIACKNAKKIYAIDINPHAIE---LLXKNIKLNKLEHKIIPILSDVREVD 256

Query: 162 ALGSRALCELIHGLTIKLGLILDVSVNNSVLDMYSCLMDLDAAIQIFREMECKDVISWTR 221
             G+R +  L       +   LD+     V+  Y+   D D AI++F E +C   +   R
Sbjct: 257 VKGNRVIMNLPKFAHKFIDKALDIVEEGGVIHYYTIGKDFDKAIKLF-EKKCDCEVLEKR 315

Query: 222 MMGLFVDFEY 231
           ++  +   EY
Sbjct: 316 IVXSYAPREY 325


  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    0.138    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,955,126
Number of Sequences: 62578
Number of extensions: 631734
Number of successful extensions: 1302
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1301
Number of HSP's gapped (non-prelim): 6
length of query: 572
length of database: 14,973,337
effective HSP length: 104
effective length of query: 468
effective length of database: 8,465,225
effective search space: 3961725300
effective search space used: 3961725300
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: 54 (25.4 bits)