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= 029372
         (194 letters)

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

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



>pdb|3BK6|A Chain A, Crystal Structure Of A Core Domain Of Stomatin From
           Pyrococcus Horikoshii
 pdb|3BK6|B Chain B, Crystal Structure Of A Core Domain Of Stomatin From
           Pyrococcus Horikoshii
 pdb|3BK6|C Chain C, Crystal Structure Of A Core Domain Of Stomatin From
           Pyrococcus Horikoshii
          Length = 188

 Score = 33.5 bits (75), Expect = 0.067,   Method: Compositional matrix adjust.
 Identities = 33/117 (28%), Positives = 55/117 (47%), Gaps = 5/117 (4%)

Query: 47  LSLRVQQLDVRC-ETKTKDNVFVNVVASVQYRALAE-KASDAFYKLSNTRSQIQAYVFDV 104
           + LR Q LDV   ET TKDNV V V A V +R +   KA           SQI       
Sbjct: 9   VDLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQTTL-- 66

Query: 105 IRASVPKLDLDATFEQKNDIAKAVEEELEKAMSHYGYEIVQTLIVDIEPDEHVKRAM 161
            R+ + +  LD    +++ +   ++  +++A   +G ++    I D+E    +++AM
Sbjct: 67  -RSVIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQKAM 122


>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
          Length = 113

 Score = 31.2 bits (69), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 34/68 (50%)

Query: 86  AFYKLSNTRSQIQAYVFDVIRASVPKLDLDATFEQKNDIAKAVEEELEKAMSHYGYEIVQ 145
           A Y +S+    I       +RA + +++LD T   ++ I   + EEL+K    +G +I +
Sbjct: 43  AVYNVSDFLMAIVKLAQTNLRAIIGEMELDETLSGRDIINARLREELDKITDRWGVKITR 102

Query: 146 TLIVDIEP 153
             I  I+P
Sbjct: 103 VEIQRIDP 110


>pdb|3PV6|A Chain A, Crystal Structure Of Nkp30 Bound To Its Ligand B7-H6
 pdb|3PV7|A Chain A, Crystal Structure Of Nkp30 Ligand B7-H6
          Length = 248

 Score = 30.4 bits (67), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 34/79 (43%), Gaps = 14/79 (17%)

Query: 15  VAIKETFGKFDDVLEPGCHCLPWCLGSQVAGQLSLRVQQLDV------RCET-----KTK 63
           V + E FG   +   PG    PW L S   G  SLR+  + +      RCE      K +
Sbjct: 53  VKVFEFFGDHQEAFRPGAIVSPWRLKS---GDASLRLPGIQLEEAGEYRCEVVVTPLKAQ 109

Query: 64  DNVFVNVVASVQYRALAEK 82
             V + VVAS   R L ++
Sbjct: 110 GTVQLEVVASPASRLLLDQ 128


>pdb|4E6Z|A Chain A, Tic22 From Plasmodium Falciparum
          Length = 279

 Score = 27.3 bits (59), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 54/107 (50%), Gaps = 10/107 (9%)

Query: 49  LRVQQLDVRCE-TKTKDNVFVNVVASVQYRALAEKASDAFYKLSNTR-SQIQAYVFDVIR 106
           L++++ +V  E +K K N++  +++S        +  +A Y LS T+ S++   VF    
Sbjct: 146 LQLEKXEVNKEDSKKKQNIYWKLISS------KRQLQNALYYLSFTKKSELXYPVFYAEN 199

Query: 107 ASVPK--LDLDATFEQKNDIAKAVEEELEKAMSHYGYEIVQTLIVDI 151
             + K   ++   F    D+ +A+EE+  KA+S   Y+I     VD+
Sbjct: 200 LYIQKDGSNIIPLFFDLEDLKEAIEEQKNKALSKVDYKIKVLNXVDL 246


>pdb|2HDE|A Chain A, Solution Structure Of Human Sap18
          Length = 148

 Score = 26.6 bits (57), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 6/72 (8%)

Query: 81  EKASDAFYKLSNTRSQIQAYVFDVIRASVPKLDL------DATFEQKNDIAKAVEEELEK 134
           EK S    ++  T +     + +  R +VP  +L      DAT ++   + K V  E  K
Sbjct: 22  EKTSPLLLRVFTTNNGRHHRMDEFSRGNVPSSELQIYTWMDATLKELTSLVKEVYPEARK 81

Query: 135 AMSHYGYEIVQT 146
             +H+ + IV T
Sbjct: 82  KGTHFNFAIVFT 93


  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
   0.321    0.134    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,018,313
Number of Sequences: 62578
Number of extensions: 180769
Number of successful extensions: 478
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 473
Number of HSP's gapped (non-prelim): 13
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
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: 49 (23.5 bits)