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= 038216
         (132 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 =  115 bits (288), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 58/91 (63%), Positives = 70/91 (76%), Gaps = 3/91 (3%)

Query: 42  GKSSVLLDIKPWNDETDMQKLEEAVRSIKMEGLHWGASKLVPVGYGIKKLQIMLTIVDDL 101
            KSS+LLD+KPW+DETDM KLEE VRSI+ +GL WG+SKLVPVGYGIKKLQI   + DD 
Sbjct: 4   AKSSILLDVKPWDDETDMAKLEECVRSIQADGLVWGSSKLVPVGYGIKKLQIQCVVEDDK 63

Query: 102 VSVDNLIEEHLMAEPINEYVQSCDIVAFNKI 132
           V  D ++EE + A    +YVQS D+ AFNKI
Sbjct: 64  VGTD-MLEEQITA--FEDYVQSMDVAAFNKI 91


>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 = 88.2 bits (217), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 43/91 (47%), Positives = 64/91 (70%), Gaps = 3/91 (3%)

Query: 42  GKSSVLLDIKPWNDETDMQKLEEAVRSIKMEGLHWGASKLVPVGYGIKKLQIMLTIVDDL 101
            KS V LD+KPW+DET+++++   V++I+MEGL WGA + +P+G+GIKKLQI   + DD 
Sbjct: 3   AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDK 62

Query: 102 VSVDNLIEEHLMAEPINEYVQSCDIVAFNKI 132
           VS+D+L +     E   ++VQS DI A  K+
Sbjct: 63  VSLDDLQQS---IEEDEDHVQSTDIAAMQKL 90


>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 = 88.2 bits (217), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 43/91 (47%), Positives = 64/91 (70%), Gaps = 3/91 (3%)

Query: 42  GKSSVLLDIKPWNDETDMQKLEEAVRSIKMEGLHWGASKLVPVGYGIKKLQIMLTIVDDL 101
            KS V LD+KPW+DET+++++   V++I+MEGL WGA + +P+G+GIKKLQI   + DD 
Sbjct: 7   AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDK 66

Query: 102 VSVDNLIEEHLMAEPINEYVQSCDIVAFNKI 132
           VS+D+L +     E   ++VQS DI A  K+
Sbjct: 67  VSLDDLQQS---IEEDEDHVQSTDIAAMQKL 94


>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 = 86.3 bits (212), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 42/91 (46%), Positives = 63/91 (69%), Gaps = 3/91 (3%)

Query: 42  GKSSVLLDIKPWNDETDMQKLEEAVRSIKMEGLHWGASKLVPVGYGIKKLQIMLTIVDDL 101
            KS V LD+KPW+DET+++++   V++I+MEGL WGA + +P+G+GIKKLQI   + DD 
Sbjct: 7   AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDK 66

Query: 102 VSVDNLIEEHLMAEPINEYVQSCDIVAFNKI 132
           VS+D+L +     E   ++VQS DI A   +
Sbjct: 67  VSLDDLQQS---IEEDEDHVQSTDIAAMQAL 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
   0.318    0.137    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,581,972
Number of Sequences: 62578
Number of extensions: 84722
Number of successful extensions: 216
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 211
Number of HSP's gapped (non-prelim): 6
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)