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= 029055
         (200 letters)

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

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



>pdb|2YUM|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
           Human Zzz3 Protein
          Length = 75

 Score = 36.2 bits (82), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 1/42 (2%)

Query: 62  WTPEEQSILEDLLAKYASDSAVN-RYAKIAKQLKDKTVRDVA 102
           WT EEQ  LE LL KY  +   + R+ KIA +L ++T + VA
Sbjct: 11  WTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVA 52


>pdb|2M2E|A Chain A, Solution Nmr Structure Of The Sant Domain Of Human Dnajc2,
           Northeast Structural Genomics Consortium Target Hr8254a
          Length = 73

 Score = 30.8 bits (68), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 60  TEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKTVRDVALR 104
           T WT EEQ +LE  L  Y  ++   R+ KIA+ +  +T +D   R
Sbjct: 4   TPWTTEEQKLLEQALKTYPVNTP-ERWKKIAEAVPGRTKKDCMKR 47


>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of
           Myb1 Protein From Protozoan Parasite Trichomonas
           Vaginalis
 pdb|2KDZ|A Chain A, Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein
           From Protozoan Parasite Trichomonas Vaginalis In Complex
           With Mre-1MRE-2r Dna
          Length = 107

 Score = 29.6 bits (65), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 8/56 (14%)

Query: 55  NSGISTE-WTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKTVRDVALRCRWMT 109
           N  + T+ W+PEE  +L+   A+Y       ++ KI+K LK+++  D  +R RWM 
Sbjct: 48  NPALRTDPWSPEEDMLLDQKYAEYGP-----KWNKISKFLKNRS--DNNIRNRWMM 96


>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
           Protein
          Length = 72

 Score = 29.6 bits (65), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 5/42 (11%)

Query: 60  TEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKTVRDV 101
            +WT EE+ + E  LAK+       R+ KI+K +  +TV  V
Sbjct: 10  VKWTIEEKELFEQGLAKFG-----RRWTKISKLIGSRTVLQV 46


>pdb|2ZXQ|A Chain A, Crystal Structure Of Endo-Alpha-N-Acetylgalactosaminidase
           From Bifidobacterium Longum (Engbf)
          Length = 1376

 Score = 28.9 bits (63), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 2/46 (4%)

Query: 52  LRHNS--GISTEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKD 95
           +R NS  G+S  W   +Q +  D +   AS S V+R+A ++K++ D
Sbjct: 418 VRRNSAGGLSYGWNWLDQGVGIDGIYDLASGSRVSRFADLSKEVGD 463


>pdb|1R8W|A Chain A, Native Structure Of The B12-Independent Glycerol
           Dehydratase From Clostridium Butyricum
 pdb|1R8W|B Chain B, Native Structure Of The B12-Independent Glycerol
           Dehydratase From Clostridium Butyricum
 pdb|1R9D|A Chain A, Glycerol Bound Form Of The B12-Independent Glycerol
           Dehydratase From Clostridium Butyricum
 pdb|1R9D|B Chain B, Glycerol Bound Form Of The B12-Independent Glycerol
           Dehydratase From Clostridium Butyricum
 pdb|1R9E|A Chain A, Structure Of The B12-Independent Glycerol Dehydratase With
           1,2-Propanediol Bound
 pdb|1R9E|B Chain B, Structure Of The B12-Independent Glycerol Dehydratase With
           1,2-Propanediol Bound
          Length = 787

 Score = 28.1 bits (61), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 27/46 (58%)

Query: 52  LRHNSGISTEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKT 97
           L  N  I  ++  +E+ +   +++  A+ + VNRYAK AK++ D T
Sbjct: 188 LEKNRSIDPDFIKKEKFLNSVIISCEAAITYVNRYAKKAKEIADNT 233


  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
   0.307    0.121    0.336 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,172,459
Number of Sequences: 62578
Number of extensions: 178127
Number of successful extensions: 336
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 331
Number of HSP's gapped (non-prelim): 17
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 49 (23.5 bits)