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= psy16001
         (318 letters)

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

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



>pdb|4DDP|A Chain A, Crystal Structure Of Beclin 1 Evolutionarily Conserved
           Domain(Ecd)
          Length = 210

 Score =  276 bits (705), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 136/209 (65%), Positives = 154/209 (73%), Gaps = 3/209 (1%)

Query: 109 EYSDFLKTXXXXXXXXXXXXNKFKSTNVFNATFHIWHSGHFGTINNFRLGTLPSAPVDWS 168
           E  D LK+            +K K TNVFNATFHIWHSG FGTINNFRLG LPS PV+W+
Sbjct: 2   ELDDELKSVENQMRYAQTQLDKLKKTNVFNATFHIWHSGQFGTINNFRLGRLPSVPVEWN 61

Query: 169 EINAAWGQXXXXXXXXXXXXXXXFQRYRIVPYGNHSYIEDTTEH-KNLPLFASGGAKFFW 227
           EINAAWGQ               FQRYR+VPYGNHSY+E  T+  K LPL+ SGG +FFW
Sbjct: 62  EINAAWGQTVLLLHALANKMGLKFQRYRLVPYGNHSYLESLTDKSKELPLYCSGGLRFFW 121

Query: 228 DTKFDMAMVAFLDCLQQFKEELEKGDSEFHLPYNMD-SKGKIEDE-TTGNTYSVKYQFNS 285
           D KFD AMVAFLDC+QQFKEE+EKG++ F LPY MD  KGKIED   +G +YS+K QFNS
Sbjct: 122 DNKFDHAMVAFLDCVQQFKEEVEKGETRFCLPYRMDVEKGKIEDTGGSGGSYSIKTQFNS 181

Query: 286 QEQWTKALKFMLTNLKWGLAWVSSQFKNQ 314
           +EQWTKALKFMLTNLKWGLAWVSSQF N+
Sbjct: 182 EEQWTKALKFMLTNLKWGLAWVSSQFYNK 210


>pdb|3VP7|A Chain A, Crystal Structure Of The Beta-Alpha Repeated,
           Autophagy-Specific (Bara) Domain Of Vps30ATG6
          Length = 220

 Score = 91.7 bits (226), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 71/221 (32%), Positives = 95/221 (42%), Gaps = 54/221 (24%)

Query: 135 NVFNATFHIWHSGHFGTINNFRLGTLPSAPVDWSEINAAWGQXXXXXXXXXXXXXXXFQR 194
           N+FNATF I HSG F TIN  RLG++P + V W EINAA GQ                  
Sbjct: 2   NIFNATFKISHSGPFATINGLRLGSIPESVVPWKEINAALGQLILLLATINKNLKINLVD 61

Query: 195 YRIVPYGNHSYIE----DTTEHKNLPLFASG---------------GAKFFWDTKFDMAM 235
           Y + P G+ S I+    ++ E+ N    A G               G  F  +TKFD ++
Sbjct: 62  YELQPMGSFSKIKKRMVNSVEYNNSTTNAPGDWLILPVYYDENFNLGRIFRKETKFDKSL 121

Query: 236 VAFLDCLQQFKEEL---------------------------EKGDSEFHLPYNMDSKGKI 268
              L+ + +   +L                           E   S   LPY M+ K KI
Sbjct: 122 ETTLEIISEITRQLSTIASSYSSQTLTTSQDESSMNNANDVENSTSILELPYIMN-KDKI 180

Query: 269 EDETTGNTYSVKYQFNSQE-QWTKALKFMLTNLKWGLAWVS 308
                 N  SVK   +S   +WT A+KF+LTN+KW LA+ S
Sbjct: 181 ------NGLSVKLHGSSPNLEWTTAMKFLLTNVKWLLAFSS 215


>pdb|3PXX|A Chain A, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Avium Bound To Nicotinamide Adenine
           Dinucleotide
 pdb|3PXX|B Chain B, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Avium Bound To Nicotinamide Adenine
           Dinucleotide
 pdb|3PXX|C Chain C, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Avium Bound To Nicotinamide Adenine
           Dinucleotide
 pdb|3PXX|D Chain D, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Avium Bound To Nicotinamide Adenine
           Dinucleotide
 pdb|3PXX|E Chain E, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Avium Bound To Nicotinamide Adenine
           Dinucleotide
 pdb|3PXX|F Chain F, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Avium Bound To Nicotinamide Adenine
           Dinucleotide
          Length = 287

 Score = 30.4 bits (67), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 6/56 (10%)

Query: 19  DIDLESQANSLDHFVPAFKL-----VDSTNGSNGFCLLGKDESSNSKGHQMKVYAN 69
           D++  S+A++L  F PA +      V++++ SN  C L  DES    G Q KV A 
Sbjct: 228 DLEAPSRADALLAF-PAMQAMPTPYVEASDISNAVCFLASDESRYVTGLQFKVDAG 282


>pdb|2V65|A Chain A, Apo Ldh From The Psychrophile C. Gunnari
 pdb|2V65|B Chain B, Apo Ldh From The Psychrophile C. Gunnari
          Length = 331

 Score = 27.7 bits (60), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 2/33 (6%)

Query: 84  LCEECTDTLLDMMDKELKNTKQDFQEYSDFLKT 116
           LC+E    ++D+M+ +LK    D Q  S FLKT
Sbjct: 44  LCDELA--MVDVMEDKLKGEVMDLQHGSLFLKT 74


  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    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,252,794
Number of Sequences: 62578
Number of extensions: 361048
Number of successful extensions: 772
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 767
Number of HSP's gapped (non-prelim): 8
length of query: 318
length of database: 14,973,337
effective HSP length: 99
effective length of query: 219
effective length of database: 8,778,115
effective search space: 1922407185
effective search space used: 1922407185
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: 51 (24.3 bits)