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= 031468
         (159 letters)

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

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



>pdb|4DL0|J Chain J, Crystal Structure Of The Heterotrimeric Egchead Peripheral
           Stalk Complex Of The Yeast Vacuolar Atpase
 pdb|4DL0|E Chain E, Crystal Structure Of The Heterotrimeric Egchead Peripheral
           Stalk Complex Of The Yeast Vacuolar Atpase
 pdb|4EFA|E Chain E, Crystal Structure Of The Heterotrimeric Egchead Peripheral
           Stalk Complex Of The Yeast Vacuolar Atpase - Second
           Conformation
          Length = 233

 Score = 79.7 bits (195), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 83/150 (55%), Gaps = 9/150 (6%)

Query: 4   NASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRC 63
           N  R+KVL A++  +  + E   +++  ++ + + YK +L+ LIV++LL+L EP  +++ 
Sbjct: 82  NKMRLKVLSAREQSLDGIFEETKEKLSGIANNRDEYKPILQSLIVEALLKLLEPKAIVKA 141

Query: 64  RKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLXXXXXXXXXXXXSCSGGVVVAS 123
            + D  L+ES+ +    EY +K Q  P E IV  + YL              SGGVVV++
Sbjct: 142 LERDVDLIESMKDDIMREYGEKAQRAPLEEIVISNDYLNKDL---------VSGGVVVSN 192

Query: 124 RDGKIVCENTLDARLDVVFRKKLPEIRKQL 153
              KI   NTL+ RL ++  + LP IR +L
Sbjct: 193 ASDKIEINNTLEERLKLLSEEALPAIRLEL 222


>pdb|4DT0|A Chain A, The Structure Of The Peripheral Stalk Subunit E From
           Pyrococcus Horikoshii
          Length = 208

 Score = 38.5 bits (88), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 33/133 (24%), Positives = 60/133 (45%), Gaps = 22/133 (16%)

Query: 7   RIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKD 66
           R K L  Q++++S+++E   + +  +S D   Y + +K L+ +++  L E  V +   + 
Sbjct: 82  RRKRLAIQEEIISSVLEEVKRRLETMSEDE--YFESVKALLKEAIKELNEKKVRVMSNEK 139

Query: 67  DHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLXXXXXXXXXXXXSCSGGVVVASRDG 126
              L+ S +E  K E              D  I L               GGV+V + DG
Sbjct: 140 TLGLIASRIEEIKSELG------------DVSIELGETV--------DTMGGVIVETEDG 179

Query: 127 KIVCENTLDARLD 139
           +I  +NT +AR++
Sbjct: 180 RIRIDNTFEARME 192


>pdb|2DM9|A Chain A, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
 pdb|2DM9|B Chain B, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
          Length = 198

 Score = 38.1 bits (87), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 33/133 (24%), Positives = 60/133 (45%), Gaps = 22/133 (16%)

Query: 7   RIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKD 66
           R K L  Q++++S+++E   + +  +S D   Y + +K L+ +++  L E  V +   + 
Sbjct: 72  RRKRLAIQEEIISSVLEEVKRRLETMSEDE--YFESVKALLKEAIKELNEKKVRVMSNEK 129

Query: 67  DHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLXXXXXXXXXXXXSCSGGVVVASRDG 126
              L+ S +E  K E              D  I L               GGV+V + DG
Sbjct: 130 TLGLIASRIEEIKSELG------------DVSIELGETV--------DTMGGVIVETEDG 169

Query: 127 KIVCENTLDARLD 139
           +I  +NT +AR++
Sbjct: 170 RIRIDNTFEARME 182


>pdb|2DMA|A Chain A, Crystal Structure Of Ph1978 From Pyrococcus Horikoshii Ot3
           (Form Ii)
          Length = 198

 Score = 37.0 bits (84), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 33/133 (24%), Positives = 58/133 (43%), Gaps = 22/133 (16%)

Query: 7   RIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKD 66
           R K L  Q++++S+++E   + +   S D   Y + +K L+ +++  L E  V +   + 
Sbjct: 72  RRKRLAIQEEIISSVLEEVKRRLETXSEDE--YFESVKALLKEAIKELNEKKVRVXSNEK 129

Query: 67  DHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLXXXXXXXXXXXXSCSGGVVVASRDG 126
              L+ S +E  K E              D  I L               GGV+V + DG
Sbjct: 130 TLGLIASRIEEIKSELG------------DVSIELGETV--------DTXGGVIVETEDG 169

Query: 127 KIVCENTLDARLD 139
           +I  +NT +AR +
Sbjct: 170 RIRIDNTFEARXE 182


>pdb|2JOV|A Chain A, Nmr Structure Of Clostridium Perfringens Protein Cpe0013.
           Northeast Structural Genomics Target Cpr31
          Length = 85

 Score = 29.6 bits (65), Expect = 0.76,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 20/30 (66%)

Query: 119 VVVASRDGKIVCENTLDARLDVVFRKKLPE 148
           V V ++ G +VC+N ++  +D++  K LP+
Sbjct: 46  VGVPTKSGNVVCKNIMNTGVDIICTKNLPK 75


  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
   0.319    0.133    0.362 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,805,368
Number of Sequences: 62578
Number of extensions: 115692
Number of successful extensions: 357
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 350
Number of HSP's gapped (non-prelim): 7
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)