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= 035053
         (74 letters)

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

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



>pdb|1B64|A Chain A, Solution Structure Of The Guanine Nucleotide Exchange
          Factor Domain From Human Elongation Factor-One Beta,
          Nmr, 20 Structures
          Length = 91

 Score = 84.7 bits (208), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 44/74 (59%), Positives = 53/74 (71%), Gaps = 3/74 (4%)

Query: 1  MKKLEEAVRSVEMPGLFWGASKLVPVGYGIKKLQIMITIVDDLVSVDSLIEEHLTVEPCN 60
          M KLEE VRS++  GL WG+SKLVPVGYGIKKLQI   + DD V  D ++EE +T     
Sbjct: 21 MAKLEECVRSIQADGLVWGSSKLVPVGYGIKKLQIQCVVEDDKVGTD-MLEEQIT--AFE 77

Query: 61 EYVQSCDIVAFNKI 74
          +YVQS D+ AFNKI
Sbjct: 78 DYVQSMDVAAFNKI 91


>pdb|1F60|B Chain B, Crystal Structure Of The Yeast Elongation Factor Complex
          Eef1a:eef1ba
 pdb|1G7C|B Chain B, Yeast Eef1a:eef1ba In Complex With Gdpnp
          Length = 94

 Score = 66.6 bits (161), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 31/67 (46%), Positives = 45/67 (67%), Gaps = 3/67 (4%)

Query: 8  VRSVEMPGLFWGASKLVPVGYGIKKLQIMITIVDDLVSVDSLIEEHLTVEPCNEYVQSCD 67
          V+++EM GL WGA + +P+G+GIKKLQI   + DD VS+D L     ++E   ++VQS D
Sbjct: 31 VKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDKVSLDDL---QQSIEEDEDHVQSTD 87

Query: 68 IVAFNKI 74
          I A  K+
Sbjct: 88 IAAMQKL 94


>pdb|1IJE|B Chain B, Nucleotide Exchange Intermediates In The Eef1a-eef1ba
          Complex
 pdb|1IJF|B Chain B, Nucleotide Exchange Mechanisms In The Eef1a-Eef1ba
          Complex
          Length = 90

 Score = 66.6 bits (161), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 31/67 (46%), Positives = 45/67 (67%), Gaps = 3/67 (4%)

Query: 8  VRSVEMPGLFWGASKLVPVGYGIKKLQIMITIVDDLVSVDSLIEEHLTVEPCNEYVQSCD 67
          V+++EM GL WGA + +P+G+GIKKLQI   + DD VS+D L     ++E   ++VQS D
Sbjct: 27 VKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDKVSLDDL---QQSIEEDEDHVQSTD 83

Query: 68 IVAFNKI 74
          I A  K+
Sbjct: 84 IAAMQKL 90


>pdb|2B7B|B Chain B, Yeast Guanine Nucleotide Exchange Factor Eef1balpha
          K205a Mutant In Complex With Eef1a And Gdp
 pdb|2B7C|B Chain B, Yeast Guanine Nucleotide Exchange Factor Eef1balpha
          K205a Mutant In Complex With Eef1a
          Length = 94

 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/67 (44%), Positives = 44/67 (65%), Gaps = 3/67 (4%)

Query: 8  VRSVEMPGLFWGASKLVPVGYGIKKLQIMITIVDDLVSVDSLIEEHLTVEPCNEYVQSCD 67
          V+++EM GL WGA + +P+G+GIKKLQI   + DD VS+D L     ++E   ++VQS D
Sbjct: 31 VKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDKVSLDDL---QQSIEEDEDHVQSTD 87

Query: 68 IVAFNKI 74
          I A   +
Sbjct: 88 IAAMQAL 94


  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
   0.320    0.138    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,021,001
Number of Sequences: 62578
Number of extensions: 60438
Number of successful extensions: 105
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 100
Number of HSP's gapped (non-prelim): 4
length of query: 74
length of database: 14,973,337
effective HSP length: 44
effective length of query: 30
effective length of database: 12,219,905
effective search space: 366597150
effective search space used: 366597150
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: 45 (21.9 bits)