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BLASTX+BEAUTY Search Results

WU-BLAST 2.0 search of the National Center for Biotechnology Information's NR Protein Database.

BEAUTY post-processing provided by the Human Genome Sequencing Center, Baylor College of Medicine.

BEAUTY Reference:
Worley KC, Culpepper P, Wiese BA, Smith RF. BEAUTY-X: enhanced BLAST searches for DNA queries. Bioinformatics 1998;14(10):890-1. Abstract

Worley KC, Wiese BA, Smith RF. BEAUTY: an enhanced BLAST-based search tool that integrates multiple biological information resources into sequence similarity search results. Genome Res 1995 Sep;5(2):173-84 Abstract 


RepeatMasker repeats found in sequence:

No Repeats Found.

Reference:  Gish, Warren (1994-1997).  unpublished.
Gish, Warren and David J. States (1993).  Identification of protein coding
regions by database similarity search.  Nat. Genet. 3:266-72.


Notice:  statistical significance is estimated under the assumption that the
equivalent of one entire reading frame in the query sequence codes for protein
and that significant alignments will involve only coding reading frames.


Query=  SSH4E04.SEQ(1>250)
        (226 letters)

  Translating both strands of query sequence in all 6 reading frames


Database:  nr
           505,245 sequences; 158,518,215 total letters.


     Observed Numbers of Database Sequences Satisfying
    Various EXPECTation Thresholds (E parameter values)

        Histogram units:      = 8 Sequences     : less than 8 sequences

 EXPECTation Threshold
 (E parameter)
    |
    V   Observed Counts-->
  10000 1625 435 |======================================================
   6310 1190 243 |==============================
   3980  947 212 |==========================
   2510  735 269 |=================================
   1580  466 188 |=======================
   1000  278  93 |===========
    631  185  55 |======
    398  130  40 |=====
    251   90  26 |===
    158   64  11 |=
    100   53  17 |==
   63.1   36  18 |==
   39.8   18   3 |:
   25.1   15   8 |=
   15.8    7   1 |:
 >>>>>>>>>>>>>>>>>>>>>  Expect = 10.0, Observed = 6  <<<<<<<<<<<<<<<<<
   10.0    6   1 |:
   6.31    5   1 |:
   3.98    4   2 |:
   2.51    2   1 |:


                                                                     Smallest
                                                                       Sum
                                                     Reading  High  Probability
Sequences producing High-scoring Segment Pairs:        Frame Score  P(N)      N
gi|4220463|gb|AAD12690.1|(AC006216) This gene is cut ... +1   142  5.4e-09   1
gi|1498560|gb|AAB06427.1|(U64495) immunoglobulin heav... +2    46  0.83      2
gi|3820624|gb|AAC69631.1|(AF099962) factor essential ... -1    54  0.97      2
gi|4539614|gb|AAD22132.1|U23711_1(U23711) FEMA [Staph... -1    54  0.97      2
gi|3608190|dbj|BAA33160.1|(AB017341) AC3 [mungbean ye... +3    58  0.998     1
gi|7485145|pir||F71412hypothetical protein - Arabidop... +3    62  0.99990   1



Locally-aligned regions (HSPs) with respect to query sequence:

Locus_ID                Frame 3 Hits
gi|3608190             |                    ___________________           
gi|7485145             |______________________________                    
                        __________________________________________________
Query sequence:        |            |            |            |           | 76
                       0           20           40           60


Locus_ID                Frame 2 Hits
gi|1498560             |                                      ___________ 
                        __________________________________________________
Query sequence:        |            |            |            |           | 76
                       0           20           40           60


Locus_ID                Frame 1 Hits
gi|4220463             | ________________________________________________ 
gi|1498560             |  ________________                                
                        __________________________________________________
Query sequence:        |            |            |            |           | 76
                       0           20           40           60


Locus_ID                Frame -1 Hits
gi|3820624             |                       __________________         
gi|4539614             |                       __________________         
                        __________________________________________________
Query sequence:        |            |            |            |           | 76
                       0           20           40           60


Locus_ID                Frame -3 Hits
gi|3820624             |           _____________                          
gi|4539614             |           _____________                          
Prosite Hits:                        _____                                
                        __________________________________________________
Query sequence:        |            |            |            |           | 76
                       0           20           40           60
__________________
Prosite hits:
   TYR_PHOSPHO_SITE     Tyrosine kinase phosphorylation site.    21..28
__________________




Use the  and  icons to retrieve links to Entrez:

E = Retrieve Entrez links (e.g., Medline abstracts, FASTA-formatted sequence reports).

R = Retrieve links to Related sequences (neighbors).

Use the  icon (if present) to retrieve links to the Sequence Retrieval System (SRS).

Use the  icon (if present) to retrieve links to the Ligand Enzyme and Chemical Compound Database .

Use the  icon (if present) to retrieve links to the Protein Data Bank database.



to_Entrezto_Relatedto_Related >gi|4220463|gb|AAD12690.1|  (AC006216) This gene is cut off. [Arabidopsis
            thaliana]
            Length = 200

Frame  1 hits (HSPs):                               _____________         
                        __________________________________________________
Database sequence:     |            |           |            |            | 200
                       0           50         100          150

  Plus Strand HSPs:

 Score = 142 (50.0 bits), Expect = 5.4e-09, P = 5.4e-09
 Identities = 24/28 (85%), Positives = 28/28 (100%), Frame = +1

Query:   142 IYMNIDDSSENYWLRLLLREWAQFCIFL 225
             IYMN+D+SS+NYWLRLL+REWAQFCIFL
Sbjct:   132 IYMNMDNSSQNYWLRLLIREWAQFCIFL 159

 Score = 86 (30.3 bits), Expect = 0.012, P = 0.011
 Identities = 23/50 (46%), Positives = 33/50 (66%), Frame = +1

Query:     7 MFKKFQGAMQIVATAETMVLYLGFSS*FINLIYINI*L*QAHQF*IYMNI 156
             MFKKFQGAMQIVA AET V+Y+   +   N  ++ + + +  QF I++ I
Sbjct:   114 MFKKFQGAMQIVAMAET-VIYMNMDNSSQNY-WLRLLIREWAQFCIFLYI 161


to_Entrezto_Relatedto_Related >gi|1498560|gb|AAB06427.1|  (U64495) immunoglobulin heavy chain variable region
            [Homo sapiens]
            Length = 81

Frame  2 hits (HSPs):                                 ___________         
Frame  1 hits (HSPs):               ________________                      
                        __________________________________________________
Database sequence:     |           |            |           |           | | 81
                       0          20           40          60          80

  Plus Strand HSPs:

 Score = 46 (16.2 bits), Expect = 1.7, Sum P(2) = 0.83
 Identities = 7/16 (43%), Positives = 11/16 (68%), Frame = +2

Query:   176 TGFVYCSENGHNSASF 223
             T   YC++ G++S SF
Sbjct:    51 TAIYYCAQTGYSSGSF 66

 Score = 40 (14.1 bits), Expect = 1.7, Sum P(2) = 0.83
 Identities = 9/24 (37%), Positives = 12/24 (50%), Frame = +1

Query:    13 KKFQGAMQIVATAETMVLYLGFSS 84
             + FQG + I A   T   Y+  SS
Sbjct:    22 ENFQGRVTITADTSTDTAYMELSS 45


to_Entrezto_Relatedto_Related >gi|3820624|gb|AAC69631.1|  (AF099962) factor essential for methicillin
            resistance FEMA [Staphylococcus haemolyticus]
            Length = 420

Frame -1 hits (HSPs):             ____                                    
Frame -3 hits (HSPs):                         ___                         
                        __________________________________________________
Database sequence:     |                 |                 |              | 420
                       0               150               300

  Minus Strand HSPs:

 Score = 54 (19.0 bits), Expect = 3.4, Sum P(2) = 0.97
 Identities = 10/27 (37%), Positives = 16/27 (59%), Frame = -1

Query:   187 NEASNSLKSHRCSYISKIDELVKVRYL 107
             NE +  LK H C Y+ ++D  +  +YL
Sbjct:    91 NELTKYLKQHNCLYV-RVDPYLPYQYL 116

 Score = 33 (11.6 bits), Expect = 3.4, Sum P(2) = 0.97
 Identities = 5/18 (27%), Positives = 12/18 (66%), Frame = -3

Query:   107 IYIKFINYEEKPKYNTIV 54
             + +KF++ EE P + + +
Sbjct:   191 VKVKFLSEEELPIFRSFM 208


to_Entrezto_Relatedto_Related >gi|4539614|gb|AAD22132.1|U23711_1  (U23711) FEMA [Staphylococcus haemolyticus]
            Length = 420

Frame -1 hits (HSPs):             ____                                    
Frame -3 hits (HSPs):                         ___                         
                        __________________________________________________
Database sequence:     |                 |                 |              | 420
                       0               150               300

  Minus Strand HSPs:

 Score = 54 (19.0 bits), Expect = 3.4, Sum P(2) = 0.97
 Identities = 10/27 (37%), Positives = 16/27 (59%), Frame = -1

Query:   187 NEASNSLKSHRCSYISKIDELVKVRYL 107
             NE +  LK H C Y+ ++D  +  +YL
Sbjct:    91 NELTKYLKQHNCLYV-RVDPYLPYQYL 116

 Score = 33 (11.6 bits), Expect = 3.4, Sum P(2) = 0.97
 Identities = 5/18 (27%), Positives = 12/18 (66%), Frame = -3

Query:   107 IYIKFINYEEKPKYNTIV 54
             + +KF++ EE P + + +
Sbjct:   191 VKVKFLSEEELPIFRSFM 208


to_Entrezto_Relatedto_Related >gi|3608190|dbj|BAA33160.1|  (AB017341) AC3 [mungbean yellow mosaic virus]
            Length = 126

Frame  3 hits (HSPs):                             ___________             
                        __________________________________________________
Database sequence:     |                   |                   |          | 126
                       0                  50                 100

  Plus Strand HSPs:

 Score = 58 (20.4 bits), Expect = 6.1, P = 1.0
 Identities = 14/27 (51%), Positives = 17/27 (62%), Frame = +3

Query:    96 LDIYKYLTLTSSSILDIYEHR*LFREL 176
             L +Y YLT TS  IL I+  + LFR L
Sbjct:    69 LKLYHYLTATSGMILSIFSRQ-LFRYL 94


to_Entrezto_Relatedto_Related >gi|7485145|pir||F71412  hypothetical protein - Arabidopsis thaliana
            >gi|2244850|emb|CAB10272.1| (Z97337) hypothetical protein
            [Arabidopsis thaliana] >gi|7268239|emb|CAB78535.1| (AL161540)
            hypothetical protein [Arabidopsis thaliana]
            Length = 275

Frame  3 hits (HSPs):                         _________                   
                        __________________________________________________
Database sequence:     |        |         |        |        |        |    | 275
                       0       50       100      150      200      250

  Plus Strand HSPs:

 Score = 62 (21.8 bits), Expect = 9.2, P = 1.0
 Identities = 14/44 (31%), Positives = 23/44 (52%), Frame = +3

Query:     6 NVQEISGCNADSSYSRNYGIIFGFLFIVYKLDIYKYLTLTSSSI 137
             NV    G N   + S +  + FGFLF  Y + +Y+ L + S ++
Sbjct:   123 NVGSNCGYNMSVNISSSVSLCFGFLFPYYVMFLYRLLGVYSGTV 166


Parameters:
  filter=none
  matrix=BLOSUM62
  V=50
  B=50
  E=10
  gi
  H=1
  sort_by_pvalue
  echofilter

  ctxfactor=5.96

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   Std.    0   BLOSUM62                                 0.318   0.135   0.401  
   +3      0   BLOSUM62        0.318   0.135   0.401    0.338   0.151   0.452  
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a
   +2      0   BLOSUM62        0.318   0.135   0.401    0.371   0.163   0.651  
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a
   +1      0   BLOSUM62        0.318   0.135   0.401    0.363   0.161   0.565  
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a
   -1      0   BLOSUM62        0.318   0.135   0.401    0.363   0.163   0.544  
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a
   -2      0   BLOSUM62        0.318   0.135   0.401    0.358   0.160   0.569  
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a
   -3      0   BLOSUM62        0.318   0.135   0.401    0.363   0.158   0.529  
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E    S W   T  X   E2     S2
   +3      0       74        74       10.  57 3  12 22  0.097   31
                                                    27  0.096   32
   +2      0       75        75       10.  57 3  12 22  0.099   31
                                                    27  0.099   32
   +1      0       75        74       10.  57 3  12 22  0.097   31
                                                    27  0.096   32
   -1      0       75        75       10.  57 3  12 22  0.099   31
                                                    27  0.099   32
   -2      0       75        75       10.  57 3  12 22  0.099   31
                                                    27  0.099   32
   -3      0       74        74       10.  57 3  12 22  0.097   31
                                                    27  0.096   32


Statistics:

  Database:  /usr/local/dot5/sl_home/beauty/seqdb/blast/nr
    Title:  nr
    Release date:  unknown
    Posted date:  8:50 PM CDT May 27, 2000
    Format:  BLAST
  # of letters in database:  158,518,215
  # of sequences in database:  505,245
  # of database sequences satisfying E:  6
  No. of states in DFA:  572 (56 KB)
  Total size of DFA:  120 KB (128 KB)
  Time to generate neighborhood:  0.01u 0.00s 0.01t  Elapsed: 00:00:00
  No. of threads or processors used:  4
  Search cpu time:  92.43u 1.10s 93.53t  Elapsed: 00:00:59
  Total cpu time:  92.47u 1.11s 93.58t  Elapsed: 00:00:59
  Start:  Wed Feb 14 18:32:34 2001   End:  Wed Feb 14 18:33:33 2001



Annotated Domains Database:   March 14, 2000 

Release Date:  March 14, 2000