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= psy7373
         (95 letters)

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

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



>pdb|4A04|A Chain A, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
           Transcription Factor Associated With The Digeorge
           Syndrome
 pdb|4A04|B Chain B, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
           Transcription Factor Associated With The Digeorge
           Syndrome
          Length = 203

 Score = 95.9 bits (237), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 49/92 (53%), Positives = 63/92 (68%), Gaps = 9/92 (9%)

Query: 5   YPDSPFTGDQLRKQVVSFEKVKLTNNEMDKHGHLVLNSMHKYQPRIHLVKRHESTINHPI 64
           +PDSP  G Q  KQ+VSF+K+KLTNN +D +GH++LNSMH+YQPR H+V         P 
Sbjct: 102 HPDSPAKGAQWMKQIVSFDKLKLTNNLLDDNGHIILNSMHRYQPRFHVV------YVDPR 155

Query: 65  TDLEA---EEYKTFIYPESIFTAVTAYQNQLI 93
            D E    E +KTF++ E+ FTAVTAYQN  I
Sbjct: 156 KDSEKYAEENFKTFVFEETRFTAVTAYQNHRI 187


>pdb|1H6F|A Chain A, Human Tbx3, A Transcription Factor Responsible For Ulnar-
           Mammary Syndrome, Bound To A Palindromic Dna Site
 pdb|1H6F|B Chain B, Human Tbx3, A Transcription Factor Responsible For Ulnar-
           Mammary Syndrome, Bound To A Palindromic Dna Site
          Length = 193

 Score = 95.1 bits (235), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 46/90 (51%), Positives = 63/90 (70%), Gaps = 6/90 (6%)

Query: 4   LYPDSPFTGDQLRKQVVSFEKVKLTNNEMDKHGHLVLNSMHKYQPRIHLVKRHESTINHP 63
           ++PDSP TG+Q   +VV+F K+KLTNN  DKHG  +LNSMHKYQPR H+V+ ++      
Sbjct: 88  IHPDSPATGEQWMSKVVTFHKLKLTNNISDKHGFTILNSMHKYQPRFHIVRAND------ 141

Query: 64  ITDLEAEEYKTFIYPESIFTAVTAYQNQLI 93
           I  L    ++T+++PE+ F AVTAYQN  I
Sbjct: 142 ILKLPYSTFRTYLFPETEFIAVTAYQNDKI 171


>pdb|2X6U|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Free Form
 pdb|2X6V|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
           Free Form
 pdb|2X6V|B Chain B, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
           Free Form
          Length = 203

 Score = 92.0 bits (227), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 44/90 (48%), Positives = 62/90 (68%), Gaps = 4/90 (4%)

Query: 4   LYPDSPFTGDQLRKQVVSFEKVKLTNNEMDKHGHLVLNSMHKYQPRIHLVKRHESTINHP 63
           ++PDSP TG    +Q+VSF+K+KLTNN +D  GH++LNSMHKYQPR+H+VK  E+     
Sbjct: 89  VHPDSPATGAHWMRQLVSFQKLKLTNNHLDPFGHIILNSMHKYQPRLHIVKADENN---- 144

Query: 64  ITDLEAEEYKTFIYPESIFTAVTAYQNQLI 93
               +   + T ++PE+ F AVT+YQN  I
Sbjct: 145 GFGSKNTAFCTHVFPETAFIAVTSYQNHKI 174


>pdb|1XBR|A Chain A, T Domain From Xenopus Laevis Bound To Dna
 pdb|1XBR|B Chain B, T Domain From Xenopus Laevis Bound To Dna
          Length = 184

 Score = 70.1 bits (170), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 42/92 (45%), Positives = 56/92 (60%), Gaps = 11/92 (11%)

Query: 4   LYPDSPFTGDQLRKQVVSFEKVKLTNNEMDKHGHLVLNSMHKYQPRIHLVKRHESTINHP 63
           ++PDSP  G    K  VSF KVKLTN +M+  G ++LNS+HKY+PRIH+V+         
Sbjct: 85  IHPDSPNFGAHWMKDPVSFSKVKLTN-KMNGGGQIMLNSLHKYEPRIHIVR--VGGTQRM 141

Query: 64  ITDLEAEEYKTFIYPESIFTAVTAYQNQLIFA 95
           IT        +  +PE+ F AVTAYQN+ I A
Sbjct: 142 IT--------SHSFPETQFIAVTAYQNEEITA 165


>pdb|2FGY|A Chain A, Beta Carbonic Anhydrase From The Carboxysomal Shell Of
          Halothiobacillus Neapolitanus (Csosca)
 pdb|2FGY|B Chain B, Beta Carbonic Anhydrase From The Carboxysomal Shell Of
          Halothiobacillus Neapolitanus (Csosca)
          Length = 542

 Score = 25.4 bits (54), Expect = 8.0,   Method: Composition-based stats.
 Identities = 10/15 (66%), Positives = 11/15 (73%)

Query: 57 ESTINHPITDLEAEE 71
          E T  HP+TDLEA E
Sbjct: 74 ERTCRHPLTDLEANE 88


  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
   0.318    0.133    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,798,949
Number of Sequences: 62578
Number of extensions: 91333
Number of successful extensions: 317
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 306
Number of HSP's gapped (non-prelim): 6
length of query: 95
length of database: 14,973,337
effective HSP length: 62
effective length of query: 33
effective length of database: 11,093,501
effective search space: 366085533
effective search space used: 366085533
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)