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= 008311
         (570 letters)

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

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



>pdb|4F7Z|A Chain A, Conformational Dynamics Of Exchange Protein Directly
           Activated By Camp
          Length = 999

 Score = 32.7 bits (73), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 22/83 (26%), Positives = 41/83 (49%), Gaps = 11/83 (13%)

Query: 147 EFWLLAQIYSSNQLAKSMAILKQLPSIMEHTSGPLKSRFDTLNNLIKAMMG-----VTRC 201
           +FW++ ++   +QL+K + +LK+   I  H        +  LN+    +MG     V+R 
Sbjct: 812 QFWVVTEVCLCSQLSKRVQLLKKFIKIAAHC-----KEYKNLNSFFAIVMGLSNVAVSRL 866

Query: 202 IVEFKDMPSNYITQDAPEFSSAM 224
            + ++ +PS +    A EF S M
Sbjct: 867 ALTWEKLPSKFKKFYA-EFESLM 888


>pdb|2BYV|E Chain E, Structure Of The Camp Responsive Exchange Factor Epac2 In
           Its Auto-Inhibited State
          Length = 999

 Score = 32.7 bits (73), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 22/83 (26%), Positives = 41/83 (49%), Gaps = 11/83 (13%)

Query: 147 EFWLLAQIYSSNQLAKSMAILKQLPSIMEHTSGPLKSRFDTLNNLIKAMMG-----VTRC 201
           +FW++ ++   +QL+K + +LK+   I  H        +  LN+    +MG     V+R 
Sbjct: 812 QFWVVTEVCLCSQLSKRVQLLKKFIKIAAHC-----KEYKNLNSFFAIVMGLSNVAVSRL 866

Query: 202 IVEFKDMPSNYITQDAPEFSSAM 224
            + ++ +PS +    A EF S M
Sbjct: 867 ALTWEKLPSKFKKFYA-EFESLM 888


>pdb|3TWO|A Chain A, The Crystal Structure Of Cad From Helicobacter Pylori
           Complexed With Nadp(H)
 pdb|3TWO|B Chain B, The Crystal Structure Of Cad From Helicobacter Pylori
           Complexed With Nadp(H)
          Length = 348

 Score = 32.3 bits (72), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 5/63 (7%)

Query: 302 LVKLFDSIHIDNMKVLKALIYAKDDLQPLVDGSTKRRVNIEVLRRKNVLLLISDLDISQE 361
           ++ +FD IH+ N KV  +LI    + Q +VD S K  +  E+      L+L  D+D +  
Sbjct: 274 VLSVFDFIHLGNRKVYGSLIGGIKETQEMVDFSIKHNIYPEI-----DLILGKDIDTAYH 328

Query: 362 ELS 364
            L+
Sbjct: 329 NLT 331


>pdb|3CF6|E Chain E, Structure Of Epac2 In Complex With Cyclic-Amp And Rap
          Length = 694

 Score = 32.0 bits (71), Expect = 0.84,   Method: Compositional matrix adjust.
 Identities = 22/83 (26%), Positives = 41/83 (49%), Gaps = 11/83 (13%)

Query: 147 EFWLLAQIYSSNQLAKSMAILKQLPSIMEHTSGPLKSRFDTLNNLIKAMMG-----VTRC 201
           +FW++ ++   +QL+K + +LK+   I  H        +  LN+    +MG     V+R 
Sbjct: 507 QFWVVTEVCLCSQLSKRVQLLKKFIKIAAHC-----KEYKNLNSFFAIVMGLSNVAVSRL 561

Query: 202 IVEFKDMPSNYITQDAPEFSSAM 224
            + ++ +PS +    A EF S M
Sbjct: 562 ALTWEKLPSKFKKFYA-EFESLM 583


  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
   0.320    0.133    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,370,729
Number of Sequences: 62578
Number of extensions: 646325
Number of successful extensions: 1489
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: 1488
Number of HSP's gapped (non-prelim): 6
length of query: 570
length of database: 14,973,337
effective HSP length: 104
effective length of query: 466
effective length of database: 8,465,225
effective search space: 3944794850
effective search space used: 3944794850
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)