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= 048456
         (211 letters)

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

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



>pdb|4G1E|A Chain A, Crystal Structure Of Integrin Alpha V Beta 3 With
           Coil-Coiled Tag
          Length = 998

 Score = 29.3 bits (64), Expect = 1.5,   Method: Composition-based stats.
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 166 GKMNREMKEMMEALENETAAKEAEFQALMEEKEAL 200
           G  N + ++ ++ALE E A  E E QAL +E +AL
Sbjct: 963 GGENAQCEKELQALEKENAQLEWELQALEKELQAL 997


>pdb|1DKG|A Chain A, Crystal Structure Of The Nucleotide Exchange Factor Grpe
           Bound To The Atpase Domain Of The Molecular Chaperone
           Dnak
 pdb|1DKG|B Chain B, Crystal Structure Of The Nucleotide Exchange Factor Grpe
           Bound To The Atpase Domain Of The Molecular Chaperone
           Dnak
          Length = 197

 Score = 27.7 bits (60), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 54/114 (47%), Gaps = 24/114 (21%)

Query: 80  NNEVRALTPIDSSSKIEPQKSVASNDHGKGPKRMKRLLANRVSAQ-RSR---LRNLAYME 135
           + E+ A+ P  S+ +++P+    +N           L A    AQ R R   LR  A ME
Sbjct: 22  HEEIEAVEPEASAEQVDPRDEKVAN-----------LEAQLAEAQTRERDGILRVKAEME 70

Query: 136 KLKK--EIDNEEAR-------LSVLLPLVSHYETECKVLGKMNREMKEMMEALE 180
            L++  E+D E+A        ++ LLP++   +   +V  K N +M  M+E +E
Sbjct: 71  NLRRRTELDIEKAHKFALEKFINELLPVIDSLDRALEVADKANPDMSAMVEDIE 124


>pdb|2Z4R|A Chain A, Crystal Structure Of Domain Iii From The Thermotoga
           Maritima Replication Initiation Protein Dnaa
 pdb|2Z4R|B Chain B, Crystal Structure Of Domain Iii From The Thermotoga
           Maritima Replication Initiation Protein Dnaa
 pdb|2Z4R|C Chain C, Crystal Structure Of Domain Iii From The Thermotoga
           Maritima Replication Initiation Protein Dnaa
 pdb|2Z4S|A Chain A, Crystal Structure Of Domain Iii From The Thermotoga
           Maritima Replication Initiation Protein Dnaa
          Length = 440

 Score = 27.3 bits (59), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 5/71 (7%)

Query: 83  VRALTPIDSSSKIEPQKSVASNDHGKGPKRMKRLLANRVSAQRSRLRN-----LAYMEKL 137
           V  L P D  ++    + +   +HG+ P+ +   +A  V     RLR      L Y E  
Sbjct: 257 VAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETT 316

Query: 138 KKEIDNEEARL 148
            KE+D +EA L
Sbjct: 317 GKEVDLKEAIL 327


  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
   0.310    0.126    0.334 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,395,962
Number of Sequences: 62578
Number of extensions: 147426
Number of successful extensions: 372
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 18
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 49 (23.5 bits)