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= 034203
         (101 letters)

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

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



>pdb|2YWI|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
           From Geobacillus Kaustophilus
 pdb|2YWI|B Chain B, Crystal Structure Of Uncharacterized Conserved Protein
           From Geobacillus Kaustophilus
          Length = 196

 Score =  100 bits (249), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 43/83 (51%), Positives = 60/83 (72%), Gaps = 4/83 (4%)

Query: 17  QSQDVARDFGAACTPEFFLFKKDGRRPFQLVYHGQFDDSRPSNNLPVTGRDIRLAIECVL 76
           ++Q+VA+ + AACTP+F++F +D     + VY GQ DDSRP+N +PVTG  IR A++ +L
Sbjct: 118 ETQEVAKAYDAACTPDFYIFDRD----LKCVYRGQLDDSRPNNGIPVTGESIRAALDALL 173

Query: 77  SGQPVSSNQKPSVGCSIKWHPQT 99
            G+PV   QKPS+GCSIKW P  
Sbjct: 174 EGRPVPEKQKPSIGCSIKWKPSA 196


>pdb|3U5R|E Chain E, Crystal Structure Of A Hypothetical Protein Smc02350 From
           Sinorhizobium Meliloti 1021
 pdb|3U5R|F Chain F, Crystal Structure Of A Hypothetical Protein Smc02350 From
           Sinorhizobium Meliloti 1021
 pdb|3U5R|G Chain G, Crystal Structure Of A Hypothetical Protein Smc02350 From
           Sinorhizobium Meliloti 1021
 pdb|3U5R|H Chain H, Crystal Structure Of A Hypothetical Protein Smc02350 From
           Sinorhizobium Meliloti 1021
          Length = 218

 Score = 99.0 bits (245), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 44/78 (56%), Positives = 58/78 (74%), Gaps = 4/78 (5%)

Query: 18  SQDVARDFGAACTPEFFLFKKDGRRPFQLVYHGQFDDSRPSNNLPVTGRDIRLAIECVLS 77
           SQ VA+ +GAACTP+FFL+ ++ R    LVYHGQFDD+RP N   VTG D+R A++ VL 
Sbjct: 132 SQSVAKAYGAACTPDFFLYDRERR----LVYHGQFDDARPGNGKDVTGADLRAAVDAVLK 187

Query: 78  GQPVSSNQKPSVGCSIKW 95
           G+ V + Q PS+GC+IKW
Sbjct: 188 GKDVGTTQVPSIGCNIKW 205


>pdb|2CVB|A Chain A, Crystal Structure Of A Thioredoxin-Like Protein From
           Thermus Thermophilus Hb8
 pdb|2YWO|A Chain A, Crystal Structure Of Reduced Thioredoxin-Like Protein From
           Thermus Thermophilus Hb8
          Length = 188

 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/83 (40%), Positives = 50/83 (60%), Gaps = 5/83 (6%)

Query: 15  LFQSQDVARDFGAACTPEFFLFKKDGRRPFQLVYHGQFDDSRPSNNLPVTGRDIRLAIEC 74
           L ++Q+VA+ + A  TPE FLF  D RR   L YHG+ +D+ P +   V   D+  AIE 
Sbjct: 102 LDETQEVAKAYRALRTPEVFLF--DERR--LLRYHGRVNDN-PKDPSKVQSHDLEAAIEA 156

Query: 75  VLSGQPVSSNQKPSVGCSIKWHP 97
           +L G+     + P++GC+IKW P
Sbjct: 157 LLRGEEPPLKEAPAIGCTIKWRP 179


>pdb|1YBE|A Chain A, Crystal Structure Of A Nicotinate
           Phosphoribosyltransferase
 pdb|1YBE|B Chain B, Crystal Structure Of A Nicotinate
           Phosphoribosyltransferase
          Length = 449

 Score = 28.5 bits (62), Expect = 1.0,   Method: Composition-based stats.
 Identities = 11/25 (44%), Positives = 20/25 (80%), Gaps = 2/25 (8%)

Query: 31  PEFFLFKKDGRRPFQLVYHGQFDDS 55
           PE+ LFK+DG+  ++L +HG++ D+
Sbjct: 122 PEYELFKRDGQ--YELNFHGRWMDT 144


  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
   0.323    0.138    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,803,107
Number of Sequences: 62578
Number of extensions: 101077
Number of successful extensions: 128
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 121
Number of HSP's gapped (non-prelim): 5
length of query: 101
length of database: 14,973,337
effective HSP length: 67
effective length of query: 34
effective length of database: 10,780,611
effective search space: 366540774
effective search space used: 366540774
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)