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= 026298
         (240 letters)

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

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



>pdb|1QD1|A Chain A, The Crystal Structure Of The Formiminotransferase Domain
           Of Formiminotransferase-Cyclodeaminase.
 pdb|1QD1|B Chain B, The Crystal Structure Of The Formiminotransferase Domain
           Of Formiminotransferase-Cyclodeaminase
          Length = 325

 Score = 35.0 bits (79), Expect = 0.033,   Method: Compositional matrix adjust.
 Identities = 22/53 (41%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 154 GKRLAKECSR-VLMRRHRARQAAESTLLRLKKEAIEALPEDLKKAALVPDLTP 205
           G+RLA+E    V +    AR A   +L  L+    EALPE LK+A   PD  P
Sbjct: 111 GQRLAEELGVPVYLYGEAARTAGRQSLPALRAGEYEALPEKLKQAEWAPDFGP 163


>pdb|2PFD|A Chain A, Anisotropically Refined Structure Of Ftcd
 pdb|2PFD|B Chain B, Anisotropically Refined Structure Of Ftcd
 pdb|2PFD|C Chain C, Anisotropically Refined Structure Of Ftcd
 pdb|2PFD|D Chain D, Anisotropically Refined Structure Of Ftcd
          Length = 541

 Score = 34.3 bits (77), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 36/65 (55%), Gaps = 2/65 (3%)

Query: 154 GKRLAKECSR-VLMRRHRARQAAESTLLRLKKEAIEALPEDLKKAALVPDLTPFP-VNRF 211
           G+RLA+E +  V +    A+  +  TL  ++    EALPE LK+A  VPD  P   V  +
Sbjct: 112 GQRLAEELNVPVYLYGEAAQXPSRQTLPAIRAGEYEALPEKLKQAEWVPDFGPSSFVPSW 171

Query: 212 MATLT 216
            AT+T
Sbjct: 172 GATVT 176


>pdb|1TT9|A Chain A, Structure Of The Bifunctional And Golgi Associated
           Formiminotransferase Cyclodeaminase Octamer
 pdb|1TT9|B Chain B, Structure Of The Bifunctional And Golgi Associated
           Formiminotransferase Cyclodeaminase Octamer
 pdb|1TT9|C Chain C, Structure Of The Bifunctional And Golgi Associated
           Formiminotransferase Cyclodeaminase Octamer
 pdb|1TT9|D Chain D, Structure Of The Bifunctional And Golgi Associated
           Formiminotransferase Cyclodeaminase Octamer
          Length = 541

 Score = 34.3 bits (77), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 36/65 (55%), Gaps = 2/65 (3%)

Query: 154 GKRLAKECSR-VLMRRHRARQAAESTLLRLKKEAIEALPEDLKKAALVPDLTPFP-VNRF 211
           G+RLA+E +  V +    A+  +  TL  ++    EALPE LK+A  VPD  P   V  +
Sbjct: 112 GQRLAEELNVPVYLYGEAAQXPSRQTLPAIRAGEYEALPEKLKQAEWVPDFGPSSFVPSW 171

Query: 212 MATLT 216
            AT+T
Sbjct: 172 GATVT 176


>pdb|3Q2K|A Chain A, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|B Chain B, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|C Chain C, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|D Chain D, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|E Chain E, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|F Chain F, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|G Chain G, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|H Chain H, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|I Chain I, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|J Chain J, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|K Chain K, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|L Chain L, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|M Chain M, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|N Chain N, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|O Chain O, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
 pdb|3Q2K|P Chain P, Crystal Structure Of The Wlba Dehydrogenase From
           Bordetella Pertussis In Complex With Nadh And
           Udp-Glcnaca
          Length = 370

 Score = 29.6 bits (65), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 21/37 (56%)

Query: 152 EDGKRLAKECSRVLMRRHRARQAAESTLLRLKKEAIE 188
           EDGKR+ K C    +R    +Q   +  L+L K+AIE
Sbjct: 130 EDGKRMVKACDEAGVRLFVVKQNRRNATLQLVKKAIE 166


>pdb|2D8C|A Chain A, Solution Structure Of The Sam-Domain Of Mouse Phosphatidyl
           Ceramidecholinephosphotransferase 1
          Length = 97

 Score = 28.9 bits (63), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 130 GMDLISLGLVDADKIPKYELTAEDGKRLAKECSRVLMRRH 169
           G DLI+L   D  K P Y +++++G+RL      + M  H
Sbjct: 46  GQDLINLTQEDFKKPPLYRVSSDNGQRLLDMIETLKMEHH 85


>pdb|1EAV|A Chain A, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|B Chain B, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|C Chain C, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|D Chain D, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|E Chain E, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|F Chain F, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|G Chain G, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
 pdb|1EAV|H Chain H, Crystal Structures Of Human Gephyrin And Plant Cnx1 G
           Domains - Comparative Analysis And Functional
           Implications
          Length = 162

 Score = 28.1 bits (61), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 79  RFLTPKDKKREIEREKLGLISKDRQREIDI--LKKGGKQAMGISDEPMIMGTPG 130
           R +TP+  K+ IERE  GL+    Q  + I       + A GI    +I+  PG
Sbjct: 86  RDVTPEATKKVIERETPGLLFVXXQESLKITPFAXLSRSAAGIRGSTLIINXPG 139


>pdb|1ZQ1|C Chain C, Structure Of Gatde Trna-Dependent Amidotransferase From
           Pyrococcus Abyssi
 pdb|1ZQ1|D Chain D, Structure Of Gatde Trna-Dependent Amidotransferase From
           Pyrococcus Abyssi
          Length = 633

 Score = 27.7 bits (60), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 41/74 (55%), Gaps = 11/74 (14%)

Query: 137 GLVDADKIPKYELTAEDGKR------LAKECSRVLM--RRHRARQAAESTLLRLKKEAIE 188
           G+   D++P Y ++ E+  +      L++E + VL+     +A+ A    + R  +EAIE
Sbjct: 347 GIFHIDELPNYGISQEEVNKVIERLNLSEEDAFVLVAAEEEKAKNALREVIKR-AREAIE 405

Query: 189 ALPEDLKKAALVPD 202
            +PE+ ++A  +PD
Sbjct: 406 GVPEETRRA--LPD 417


>pdb|3I6V|A Chain A, Crystal Structure Of A Periplasmic HisGLUGLNARGOPINE
           FAMILY- Binding Protein From Silicibacter Pomeroyi In
           Complex With Lysine
          Length = 232

 Score = 27.7 bits (60), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 15/61 (24%), Positives = 28/61 (45%)

Query: 73  NAPTPVRFLTPKDKKREIEREKLGLISKDRQREIDILKKGGKQAMGISDEPMIMGTPGMD 132
           +  T V F TP++    +   +   +  DR   + I+ + G + M + D+  + G  GM 
Sbjct: 124 SGATLVEFATPEETIAAVRNGEADAVFADRDYLVPIVAESGGELMFVGDDVPLGGGVGMG 183

Query: 133 L 133
           L
Sbjct: 184 L 184


  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
   0.316    0.133    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,411,250
Number of Sequences: 62578
Number of extensions: 238702
Number of successful extensions: 668
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 660
Number of HSP's gapped (non-prelim): 21
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)