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= 022084
         (303 letters)

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

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



>pdb|2ICU|A Chain A, Crystal Structure Of Hypothetical Protein Yedk From
           Escherichia Coli
 pdb|2ICU|B Chain B, Crystal Structure Of Hypothetical Protein Yedk From
           Escherichia Coli
          Length = 229

 Score = 63.9 bits (154), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 65/122 (53%), Gaps = 5/122 (4%)

Query: 17  FYEWKKDGSKKQPYYVHFKDGRPLVFAALYDTWQSSEGEILYTFTILTTSSSAALQWLHD 76
           ++EWKK+G KKQP++++  DG+P+  AA+  T     G+    F I+T ++   L  +HD
Sbjct: 110 WFEWKKEGDKKQPFFIYRADGQPIFXAAIGST-PFERGDEAEGFLIVTAAADQGLVDIHD 168

Query: 77  RMPVILGDKESSDAWLNGSSSSKYDTILKP---YEESDLVWYPVTPAMGKLSFDGPECIK 133
           R P++L   E++  W     S K  + +        +   W+PV+ A+G +   G E I+
Sbjct: 169 RRPLVL-SPEAAREWXRQEISGKEASEIAASGCVPANQFSWHPVSRAVGNVKNQGAELIQ 227

Query: 134 EI 135
            +
Sbjct: 228 PV 229


>pdb|2F20|A Chain A, X-Ray Crystal Structure Of Protein Bt_1218 From
           Bacteroides Thetaiotaomicron. Northeast Structural
           Genomics Consortium Target Btr8.
 pdb|2F20|B Chain B, X-Ray Crystal Structure Of Protein Bt_1218 From
           Bacteroides Thetaiotaomicron. Northeast Structural
           Genomics Consortium Target Btr8
          Length = 240

 Score = 58.5 bits (140), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 33/97 (34%), Positives = 58/97 (59%), Gaps = 6/97 (6%)

Query: 17  FYEWKKDGSKKQPYYVHFKDGRPLVFAALYDTWQSSE-GEILYTFTILTTSSSAALQWLH 75
           ++EW+ +G+ K PYY++ KD      A +YD W   + GE   TF+I+TT +++   ++ 
Sbjct: 110 YFEWRHEGANKIPYYIYVKDEPIFSXAGIYDRWLDKDTGEEHETFSIITTDTNSLTDYID 169

Query: 76  D---RMPVILGDKESSDAWLNGS-SSSKYDTILKPYE 108
           +   R P IL  +E  + WLN S S ++  ++LKP++
Sbjct: 170 NTKHRXPAILT-QEEEEKWLNPSLSKAEIASLLKPFD 205


>pdb|2BDV|A Chain A, X-ray Crystal Structure Of Phage-related Protein Bb2244
           From Bordetella Bronchiseptica. Northeast Structural
           Genomics Consortium Target Bor24
          Length = 231

 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 62/122 (50%), Gaps = 9/122 (7%)

Query: 17  FYEWKK--DGSK--KQPYYVHFKDGRPLVFAALYDTWQSSEGEILYTFTILTTSSSAALQ 72
           +YEWK    G K  KQPYY+H     PL+FA L    + +E +  + F I+T  +   + 
Sbjct: 102 WYEWKALDSGPKPAKQPYYIH--GDAPLLFAGLSAWRRGAELDEAHGFAIVTNDALGGMV 159

Query: 73  WLHDRMPVILGDKESSDAWLNGSSS-SKYDTILKP-YEESDLVWYPVTPAMGKLSFDGPE 130
            +HDR PV L   E +  W++ ++  ++   IL+    E+   WYPV   +G   +  P+
Sbjct: 160 DVHDRRPVAL-PPELAREWVDPATPVARAKEILRAGLPETAFSWYPVRQEVGSSKYQLPD 218

Query: 131 CI 132
            +
Sbjct: 219 AV 220


>pdb|1ZN6|A Chain A, X-Ray Crystal Structure Of Protein Q7wlm8 From Bordetella
           Bronchiseptica. Northeast Structural Genomics Consortium
           Target Bor19
          Length = 227

 Score = 32.7 bits (73), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 9/85 (10%)

Query: 36  DGRPLVFAALYDTWQSSEGEILYTFTILTTSS--SAALQWLHD-----RMPVILGDKESS 88
           DG PL  A L+D ++++ GE + ++T LT ++      +  H      R  VIL D    
Sbjct: 132 DGAPLGIAGLWDRYRNAAGEWIDSYTXLTINADDDPLFRDYHQAGKEKRXVVILPDGAYG 191

Query: 89  DAWLNGSSSSKYDTILKPYEESDLV 113
           D WL   ++   D +L PY    LV
Sbjct: 192 D-WLTAPATDTRDFLL-PYPADRLV 214


>pdb|3BHQ|A Chain A, Crystal Structure Of A Putative Tetr-Family
           Transcriptional Regulator (Mlr_4833) From Mesorhizobium
           Loti Maff303099 At 1.54 A Resolution
 pdb|3BHQ|B Chain B, Crystal Structure Of A Putative Tetr-Family
           Transcriptional Regulator (Mlr_4833) From Mesorhizobium
           Loti Maff303099 At 1.54 A Resolution
          Length = 211

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

Query: 22  KDGSKKQPYYVHFKDGRPLVFAALYDTWQSSEGEILYTFTILTTSS---SAALQWLHDRM 78
           K G+ KQ  Y HF D   L F  +  +  S   +I+ + T L + +      LQ L  R+
Sbjct: 41  KAGASKQTVYKHFTDKETL-FGEVVLSTASQVNDIIESVTTLLSEAIFXEGGLQQLARRL 99

Query: 79  PVILGDKE 86
             +L D+E
Sbjct: 100 IAVLXDEE 107


>pdb|2P9M|A Chain A, Crystal Structure Of Conserved Hypothetical Protein Mj0922
           From Methanocaldococcus Jannaschii Dsm 2661
 pdb|2P9M|B Chain B, Crystal Structure Of Conserved Hypothetical Protein Mj0922
           From Methanocaldococcus Jannaschii Dsm 2661
 pdb|2P9M|C Chain C, Crystal Structure Of Conserved Hypothetical Protein Mj0922
           From Methanocaldococcus Jannaschii Dsm 2661
 pdb|2P9M|D Chain D, Crystal Structure Of Conserved Hypothetical Protein Mj0922
           From Methanocaldococcus Jannaschii Dsm 2661
          Length = 138

 Score = 28.9 bits (63), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 3/46 (6%)

Query: 233 GDPDTKSVASVLSDEDTKKELQKRDY---KEFLADSKPVIDGNNKL 275
           GD  TK V ++  D    + ++K D    KE + +  PV+D NNKL
Sbjct: 76  GDVXTKDVITIHEDASILEAIKKXDISGKKEEIINQLPVVDKNNKL 121


>pdb|3MMD|A Chain A, Crystal Structure Of The W241a Mutant Of Xylanase From
           Geobacillus Stearothermophilus T-6 (Xt6) Complexed With
           Hydrolyzed Xylopentaose
          Length = 379

 Score = 28.5 bits (62), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 21/41 (51%)

Query: 205 TAQTNLPKSVKDEAVTADDIRTQSSVEKGDPDTKSVASVLS 245
           TA  NL K +K+E V  D I  QS ++ G P    +   ++
Sbjct: 212 TALYNLVKQLKEEGVPIDGIGHQSHIQIGAPSEAEIEKTIN 252


>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
 pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
          Length = 715

 Score = 28.1 bits (61), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 5/32 (15%)

Query: 83  GDKESSDAWLNGSSSSKYDTILKPYEESDLVW 114
           GD ++ DAWL       YD I+  YE+ D +W
Sbjct: 110 GDYDTDDAWL-----KNYDIIITTYEKLDSLW 136


  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
   0.311    0.129    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,034,578
Number of Sequences: 62578
Number of extensions: 364019
Number of successful extensions: 906
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 897
Number of HSP's gapped (non-prelim): 13
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)