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= 006554
         (640 letters)

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

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



>pdb|3RIP|A Chain A, Crystal Structure Of Human Gamma-Tubulin Complex Protein 4
           (Gcp4)
          Length = 677

 Score = 79.7 bits (195), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 122/582 (20%), Positives = 211/582 (36%), Gaps = 102/582 (17%)

Query: 14  PRATRVMVRKLCELGWLFRKVRGYISE------SMDRFPAEDV-----GTVGQAFCAALQ 62
           P  T V+ R LC LG  + +   +I +        D  P++       G   +AFC  L 
Sbjct: 36  PSETSVLNR-LCRLGTDYIRFTEFIEQYTGHVQQQDHHPSQQGQGGLHGIYLRAFCTGLD 94

Query: 63  DELLEYYKLLAVLEAQAMNPIPLVSESAGSGNYLSLRRLSVWFAEPMVKMRLMAVLVDKC 122
             L  Y + L  LE + +    L   S    NY  L +  + F   MV +  +     K 
Sbjct: 95  SVLQPYRQALLDLEQEFLGDPHL---SISHVNYF-LDQFQLLFPSVMVVVEQI-----KS 145

Query: 123 RVLRGGAMAGAIHLHAQHGDLLVHEFMKRLLRRVCSPLFEMVRSWVLEGELEDIFAEFFV 182
           + + G  +   ++ H+  G   V   ++++L      +++ + +W+L G L D   EFF+
Sbjct: 146 QKIHGCQILETVYKHSCGGLPPVRSALEKILAVCHGVMYKQLSAWMLHGLLLDQHEEFFI 205

Query: 183 VGHPVKA----------ESLWRDG---------------------------YRLHSGMLP 205
              P             E L   G                           + L   +LP
Sbjct: 206 KQGPSSGNVSAQPEEDEEDLGIGGLTGKQLRELQDLRLIEEENMLAPSLKQFSLRVEILP 265

Query: 206 SFISQSLAQRILRTGKSINFL---RVCCDDRGWXXXXXXXXXXXXXXXRRGSLGYGETDA 262
           S+I   +A++IL  G+S+       V    +G                 +    +   D 
Sbjct: 266 SYIPVRVAEKILFVGESVQMFENQNVNLTRKGSILKNQEDTFAAELHRLKQQPLFSLVD- 324

Query: 263 LETLVIEAAKRIDKHLLDVIYKRYKFREHCLAIKRYLLLGQGDFVQYLMDIVGPELSEPA 322
            E +V      + +HL  ++ +          IK + LLG+G+  Q  +D     L  P 
Sbjct: 325 FEQVVDRIRSTVAEHLWKLMVEESDLLGQLKIIKDFYLLGRGELFQAFIDTAQHMLKTPP 384

Query: 323 NTISSFKL-AGLLESAIR------------SSNAQYDDPDILDRLRVK------LMPHGT 363
             ++   +     +SA +                +Y   +  D  + +        P   
Sbjct: 385 TAVTEHDVNVAFQQSAHKVLLDDDNLLPLLHLTIEYHGKEHKDATQAREGPSRETSPREA 444

Query: 364 GDRGWDVFSLEYDARVPLDTLFTESVMARYLKIFNFLWKLRRVEHALIGAWK-AMKPNCI 422
              GW    L Y  + PL  LFT +V+ +Y  +F +L  +RRV+  L   W   M+   +
Sbjct: 445 PASGWAALGLSYKVQWPLHILFTPAVLEKYNVVFKYLLSVRRVQAELQHCWALQMQRKHL 504

Query: 423 TSNSFTKLQHAVKLQLLSTLRRCQVLWDEMNHFVTNLQYYIMFEVLEVSWSNFSNEMEXX 482
            SN       A+K +          L + M   V NLQYY+  +VLE  +S   +++   
Sbjct: 505 KSNQTD----AIKWR----------LRNHMAFLVDNLQYYLQVDVLESQFSQLLHQINST 550

Query: 483 XXXXXXXXXHEKYLHSIFEKSLLGERSQSLFKSLFVLFDLIL 524
                    H+ +L ++  +S +      L K +F   + IL
Sbjct: 551 RDFESIRLAHDHFLSNLLAQSFI------LLKPVFHCLNEIL 586


>pdb|2KWL|A Chain A, Solution Structure Of Acyl Carrier Protein From Borrelia
          Burgdorferi
          Length = 84

 Score = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 30 LFRKVRGYISESMDRFPAEDVGTVGQAFCAALQDELLEYYKLLAVLEAQAMNPIP 84
          +F KVR  ISE +D+   ED  T    F   L  + L+ Y+LL +LE    + IP
Sbjct: 10 IFSKVRSIISEQLDK--KEDEITTDSRFVEDLNADSLDIYELLYLLEEAFDDKIP 62


>pdb|1B3J|A Chain A, Structure Of The Mhc Class I Homolog Mic-A, A Gammadelta T
           Cell Ligand
          Length = 274

 Score = 31.2 bits (69), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 125 LRGGAMAGAIHLHAQHGDLL--VHEFMKR--LLRRVCSPLFEMVRSWVLEGEL 173
           L+  AM    H HA H D L  +  ++K   +LRR   P+  + RS   EG +
Sbjct: 146 LKEDAMKTKTHYHAMHADCLQELRRYLKSGVVLRRTVPPMVNVTRSEASEGNI 198


>pdb|1HYR|C Chain C, Crystal Structure Of Human Mica In Complex With Natural
           Killer Cell Receptor Nkg2d
          Length = 275

 Score = 31.2 bits (69), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 125 LRGGAMAGAIHLHAQHGDLL--VHEFMKR--LLRRVCSPLFEMVRSWVLEGEL 173
           L+  AM    H HA H D L  +  ++K   +LRR   P+  + RS   EG +
Sbjct: 147 LKEDAMKTKTHYHAMHADCLQELRRYLKSGVVLRRTVPPMVNVTRSEASEGNI 199


  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
   0.325    0.139    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,973,842
Number of Sequences: 62578
Number of extensions: 634163
Number of successful extensions: 1763
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: 1756
Number of HSP's gapped (non-prelim): 10
length of query: 640
length of database: 14,973,337
effective HSP length: 105
effective length of query: 535
effective length of database: 8,402,647
effective search space: 4495416145
effective search space used: 4495416145
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)