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

processing output:
cycle 1
cycle 2
cycle 3
cycle 4
Repeat sequence:
   SW  perc perc perc  query                position in query    matching repeat        position in  repeat
score  div. del. ins.  sequence             begin  end (left)    repeat   class/family  begin  end (left)  ID

  918   0.0  0.0  0.0  'E10B01_D13_03.ab1'    257  358    (0) +  (A)n     Simple_repeat     1  102    (0)      

Alignments:
918  0.00  0.00  0.00  'E10B01_D13_03.ab1'  257  358  (0)  (A)n#Simple_repeat  1  102  (78)  5

  'E10B01_D13_03.    257 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 306    
                                                                           
  (A)n#Simple_rep      1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 50

  'E10B01_D13_03.    307 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 356    
                                                                           
  (A)n#Simple_rep     51 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 100

  'E10B01_D13_03.    357 AA 358    
                           
  (A)n#Simple_rep    101 AA 102

Transitions / transversions = 1.00 (0 / 0)
Gap_init rate = 0.00 (0 / 102), avg. gap size = 0.00 (0 / 0)  

Masked Sequence:
>'E10B01_D13_03.ab1'
TTACGGCCGGGGTTTGTTTTGTTGTAAATTTTATACAGCCACAGGATTGG
TATAGTATATACTAGTATTTCATAACTGTTGTATGCTTTTACACATGGTG
TTGGTGAAATTTTTTTATTACTTTGGGGTTTCTCTTTTAGTTGGGAGGAG
AACCTCATATTAATCTTTTGTAAGATTCTGTTGATTTTTTTCCTGTCTTC
ACAATTGTTCACTACCAAAATAGTATTGTTTCATAAGAAATGTGATTTTT
TTTGTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNN

Summary:
==================================================
file name: /repeatmasker/tmp/RM2seq
sequences:            1
total length:       358 bp
GC level:         22.07 %
bases masked:       102 bp ( 28.49 %)
==================================================
               number of      length   percentage
               elements*    occupied  of sequence
--------------------------------------------------
SINEs:                0            0 bp     0.00 %
      ALUs            0            0 bp     0.00 %
      MIRs            0            0 bp     0.00 %

LINEs:                0            0 bp     0.00 %
      LINE1           0            0 bp     0.00 %
      LINE2           0            0 bp     0.00 %
      L3/CR1          0            0 bp     0.00 %

LTR elements:         0            0 bp     0.00 %
      MaLRs           0            0 bp     0.00 %
      ERVL            0            0 bp     0.00 %
      ERV_classI      0            0 bp     0.00 %
      ERV_classII     0            0 bp     0.00 %

DNA elements:         0            0 bp     0.00 %
      MER1_type       0            0 bp     0.00 %
      MER2_type       0            0 bp     0.00 %

Unclassified:         0            0 bp     0.00 %

Total interspersed repeats:        0 bp     0.00 %


Small RNA:            0            0 bp     0.00 %

Satellites:           0            0 bp     0.00 %
Simple repeats:       1          102 bp    28.49 %
Low complexity:       0            0 bp     0.00 %
==================================================

* most repeats fragmented by insertions or deletions
  have been counted as one element

The sequence(s) were assumed to be of primate origin.
RepeatMasker version 07/16/2000               default
ProcessRepeats version 07/16/2000
Repbase version 03/31/2000


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=  'E10B01_D13_03.ab1'
        (358 letters)
  Translating both strands of query sequence in all 6 reading frames

Database:  nr
           625,274 sequences; 197,782,623 total letters.


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

        Histogram units:      = 11 Sequences     : less than 11 sequences

 EXPECTation Threshold
 (E parameter)
    |
    V   Observed Counts-->
  10000 2326 623 |========================================================
   6310 1703 509 |==============================================
   3980 1194 332 |==============================
   2510  862 256 |=======================
   1580  606 175 |===============
   1000  431 132 |============
    631  299  78 |=======
    398  221  91 |========
    251  130  37 |===
    158   93  20 |=
    100   73  22 |==
   63.1   51  13 |=
   39.8   38   7 |:
   25.1   31   3 |:
   15.8   28   6 |:
 >>>>>>>>>>>>>>>>>>>>>  Expect = 10.0, Observed = 22  <<<<<<<<<<<<<<<<<
   10.0   22   3 |:
   6.31   19   8 |:
   3.98   11   2 |:
   2.51    9   1 |:
   1.58    8   1 |:
   1.00    7   2 |:
   0.63    5   3 |:
   0.40    2   0 |
   0.25    2   0 |
   0.16    2   0 |
   0.10    2   0 |
  0.063    2   1 |:
  0.040    1   0 |
  0.025    1   1 |:


                                                                     Smallest
                                                                       Sum
                                                     Reading  High  Probability
Sequences producing High-scoring Segment Pairs:        Frame Score  P(N)      N
gi|1143031|gb|AAA85010.1|(U28974) ORF15 [Spiroplasma ... +1    54  0.024     2
gi|501027|gb|AAA62273.1|(U01849) ORF2 [Trypanosoma br... +1    59  0.041     2
gi|102129|pir||A35349H+-transporting ATP synthase pro... +1    73  0.38      1
gi|11466216ref|NP_066539.1| haem lyase [Naegleria gru... +1    77  0.44      1
gi|9967192|dbj|BAB12298.1|(AB047877) hypothetical pro... +2    67  0.45      1
gi|114465|sp|P24499|ATP6_TRYBBATP SYNTHASE A CHAIN (P... +1    71  0.59      1
gi|343544|gb|AAA97428.1|(M33228) ATPase 6 [Trypanosom... +1    71  0.59      1
gi|2522340|gb|AAB81019.1|(U94405) elongation factor-1... -3    68  0.70      1
gi|684950|gb|AAA62477.1|(U20782) staphylococcal acces... -3    62  0.90      1
gi|11282289|pir||E81734conserved hypothetical protein... +1    66  0.97      1
gi|7468190|pir||D72018conserved hypothetical protein ... +1    65  0.98      1
gi|11349692|pir||G83297hypothetical protein PA2791 [i... +2    60  0.98      1
gi|11355131|pir||C82246hypothetical protein VC1072 [i... +1    59  0.98      1
gi|7430179|pir||F69780two-component sensor histidine ... +1    68  0.99      1
gi|10802923|gb|AAG23671.1|AF288091_16(AF288091) SecY-... +1    59  0.990     2
gi|7510274|pir||T27212hypothetical protein Y57G11B.2 ... +2    59  0.993     2
gi|7304276|gb|AAF59310.1|(AE003842) CG12845 gene prod... +1    64  0.993     1
gi|126263|sp|P09927|LHB_CHLAULIGHT-HARVESTING PROTEIN... +2    58  0.995     1
gi|10954526ref|NP_044165.1| M. jannaschii predicted c... -3    66  0.997     1
gi|127476|sp|P23039|MTPE_SULACMEMBRANE-ASSOCIATED ATP... -3    57  0.999     1
gi|5835693ref|NP_008509.1|ND1_15044 NADH dehydrogenas... +1    64  0.9998    1
gi|7451713|pir||A721004-hydroxybenzoate octaprenyltra... +1    63  0.99995   1

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.


 >gi|1143031|gb|AAA85010.1|  (U28974) ORF15 [Spiroplasma virus]
            Length = 72

Frame  3 hits (HSPs):     ______________                                  
Frame  1 hits (HSPs):                    _______________________________  
                        __________________________________________________
Database sequence:     |             |             |            |         | 72
                       0            20            40           60

  Plus Strand HSPs:

 Score = 54 (19.0 bits), Expect = 0.025, Sum P(2) = 0.024
 Identities = 13/44 (29%), Positives = 21/44 (47%), Frame = +1

Query:    82 YAFTHGVGEIFLLLWGFSFSWEENLILIF--CKILLIFFLSSQLF 210
             + F   +G I+   W     WE   ILI+  CK + + ++S   F
Sbjct:    26 FGFALFIGSIYDK-WDKLIKWERYFILIYVSCKFVFLIWISLMYF 69

 Score = 36 (12.7 bits), Expect = 0.025, Sum P(2) = 0.024
 Identities = 5/20 (25%), Positives = 12/20 (60%), Frame = +3

Query:    21 VVNFIQPQDWYSIY*YFITV 80
             ++ F++ + W+ I  Y + V
Sbjct:     5 ILKFLKRKKWWEILVYILVV 24


 >gi|501027|gb|AAA62273.1|  (U01849) ORF2 [Trypanosoma brucei]
            Length = 141

Frame  3 hits (HSPs):           ___________                               
Frame  2 hits (HSPs):     _____________                                   
Frame  1 hits (HSPs):                   ___________________               
                        __________________________________________________
Database sequence:     |                 |                 |              | 141
                       0                50               100

  Plus Strand HSPs:

 Score = 59 (20.8 bits), Expect = 0.042, Sum P(2) = 0.041
 Identities = 15/51 (29%), Positives = 24/51 (47%), Frame = +1

Query:   112 FLLLWGFSFSW-EENLILIFCKILLIF-FLSSQLFTTKIVLFHKKC-DFFC 255
             FLL W   F W  + ++  FC ++++F F    +       F+  C  FFC
Sbjct:    48 FLLFWVVIFYWCFDCIVYFFCDVIILFIFFFYFVLCFLYCCFYLVCLVFFC 98

 Score = 45 (15.8 bits), Expect = 0.042, Sum P(2) = 0.041
 Identities = 11/30 (36%), Positives = 13/30 (43%), Frame = +3

Query:    15 CFVVNFIQPQDWYSIY*YFITVVCFYTWCW 104
             CFV  F     W      F+ VVCF+   W
Sbjct:    24 CFVFCFCCLFVWVCFI-CFVIVVCFFLLFW 52

 Score = 40 (14.1 bits), Expect = 0.21, Sum P(2) = 0.19
 Identities = 9/34 (26%), Positives = 16/34 (47%), Frame = +2

Query:    14 LFC-CKFYTATGLV*YILVFHNCCMLLHMVLVKF 112
             ++C C   T  G+     VF  CC+ + +  + F
Sbjct:     8 IWCVCVLCTVYGIFYCCFVFCFCCLFVWVCFICF 41


 >gi|102129|pir||A35349  H+-transporting ATP synthase protein 6 homolog -
            Trypanosoma brucei mitochondrion
            Length = 214

Frame  1 hits (HSPs):         ___________________                         
Annotated Domains:                ____                                    
                        __________________________________________________
Database sequence:     |           |           |          |           |   | 214
                       0          50         100        150         200
__________________

Annotated Domains:
   PROSITE              CRYSTALLIN_BETAGAMMA: Crystallins beta a 44..59
__________________


  Plus Strand HSPs:

 Score = 73 (25.7 bits), Expect = 0.47, P = 0.38
 Identities = 24/79 (30%), Positives = 41/79 (51%), Frame = +1

Query:    28 ILYSHRIGIVYTSIS*LLYAFTHGVGE-IFLLLWGFSFSWEENLILIFC----KILLIFF 192
             I+Y + + +++  +   L+     VG  +FLLLW   F+   +LIL +C     + L+F 
Sbjct:    29 IVYPNCLMLIFDFLLFCLFDLYLFVGLCVFLLLWFMLFNLY-SLILYYCITYLNLYLLFC 87

Query:   193 LSSQLFTTKIVLFHKKCDFF 252
             +   L+   + LF   CDFF
Sbjct:    88 IVFLLYIAFLFLFCFLCDFF 107


 >gi|11466216  ref|NP_066539.1| haem lyase [Naegleria gruberi]
            >gi|10444251|gb|AAG17817.1|AF288092_42 (AF288092) haem lyase
            [Naegleria gruberi]
            Length = 474

Frame  1 hits (HSPs):               __________                            
                        __________________________________________________
Database sequence:     |               |               |               |  | 474
                       0             150             300             450

  Plus Strand HSPs:

 Score = 77 (27.1 bits), Expect = 0.57, P = 0.44
 Identities = 26/91 (28%), Positives = 41/91 (45%), Frame = +1

Query:     1 LRPGFVLL*ILYSHRIGIVYTSIS*LLY--AFTHGVGEIF---LLLWGFSFSWE--ENLI 159
             + P  +L+ +L    I   Y +I    Y  +FT  +G  +   +  WG  +SW+  EN+ 
Sbjct:   117 IHPPLILILLLILKNINFQYKNIKYFFYFFSFTLFLGSYWATSVFGWGGWWSWDPIENIS 176

Query:   160 LIFCKILLIFFLSSQLFTTKIVLFHKKCDFF 252
             LI+  I  +F        T I L+    DFF
Sbjct:   177 LIYWFIFFLFIHKINKINTYIYLYIFIIDFF 207


 >gi|9967192|dbj|BAB12298.1|  (AB047877) hypothetical protein [Macaca
            fascicularis]
            Length = 97

Frame  2 hits (HSPs):                      __________________             
                        __________________________________________________
Database sequence:     |         |          |         |         |         | 97
                       0        20         40        60        80

  Plus Strand HSPs:

 Score = 67 (23.6 bits), Expect = 0.59, P = 0.45
 Identities = 16/35 (45%), Positives = 21/35 (60%), Frame = +2

Query:   146 RRTSY*SFVRFC*F--FSCLHNCSLPK*YCFIRNVI 247
             R TSY +F+  C F  F CL   SLP  +CF+R  +
Sbjct:    38 RDTSY-TFLSMCLFHTFLCLEYPSLPSSFCFLRGCV 72


 >gi|114465|sp|P24499|ATP6_TRYBB  ATP SYNTHASE A CHAIN (PROTEIN 6)
            Length = 229

Frame  1 hits (HSPs):             _____________                           
Annotated Domains:      _________________________________________________ 
                        __________________________________________________
Database sequence:     |          |          |          |          |      | 229
                       0         50        100        150        200
__________________

Annotated Domains:
   BLOCKS               BL00449A: ATP synthase a subunit protein 17..44
   BLOCKS               BL00449B: ATP synthase a subunit protein 125..160
   BLOCKS               BL00449C: ATP synthase a subunit protein 174..196
   DOMO                 DM05247:                                 13..199
   PFAM                 ATP-synt_A: ATP synthase A chain         48..221
   PRODOM               PD000148: NU2M(15) NU5M(14) NU1M(13)     2..213
   PROSITE              CRYSTALLIN_BETAGAMMA: Crystallins beta a 43..58
__________________


  Plus Strand HSPs:

 Score = 71 (25.0 bits), Expect = 0.89, P = 0.59
 Identities = 23/59 (38%), Positives = 33/59 (55%), Frame = +1

Query:    79 LYAFTHGVGEIFLLLWGFSFSWEENLILIFC----KILLIFFLSSQLFTTKIVLFHKKCD 246
             LY F  G+  +FLLLW   F+   +LIL +C     + L+F +   L+   + LF   CD
Sbjct:    48 LYLFV-GLC-LFLLLWFMLFNLY-SLILYYCITYLNLYLLFCIVFLLYIAFLFLFCFLCD 104

Query:   247 FF 252
             FF
Sbjct:   105 FF 106


 >gi|343544|gb|AAA97428.1|  (M33228) ATPase 6 [Trypanosoma brucei]
            Length = 231

Frame  1 hits (HSPs):             _____________                           
                        __________________________________________________
Database sequence:     |          |          |          |          |      | 231
                       0         50        100        150        200

  Plus Strand HSPs:

 Score = 71 (25.0 bits), Expect = 0.90, P = 0.59
 Identities = 23/59 (38%), Positives = 33/59 (55%), Frame = +1

Query:    79 LYAFTHGVGEIFLLLWGFSFSWEENLILIFC----KILLIFFLSSQLFTTKIVLFHKKCD 246
             LY F  G+  +FLLLW   F+   +LIL +C     + L+F +   L+   + LF   CD
Sbjct:    49 LYLFV-GLC-LFLLLWFMLFNLY-SLILYYCITYLNLYLLFCIVFLLYIAFLFLFCFLCD 105

Query:   247 FF 252
             FF
Sbjct:   106 FF 107


 >gi|2522340|gb|AAB81019.1|  (U94405) elongation factor-1 alpha [Spironucleus
            muris]
            Length = 179

Frame -3 hits (HSPs):                                  __________________ 
                        __________________________________________________
Database sequence:     |             |             |             |        | 179
                       0            50           100           150

  Minus Strand HSPs:

 Score = 68 (23.9 bits), Expect = 1.2, P = 0.70
 Identities = 21/62 (33%), Positives = 29/62 (46%), Frame = -3

Query:   221 ILVVNNCEDRKKINRILQKINMRFSSQLKEKPQSNKK-------ISPT-P-CVKAYNSYE 69
             +L  + C    K  + LQKI+ R     +E P+  KK       I PT P CV+AY  + 
Sbjct:   112 VLDCHTCHLACKFEKFLQKIDQRTMKPTEENPEKAKKGECIMAEIKPTKPMCVEAYTDFP 171

Query:    68 IL 63
              L
Sbjct:   172 AL 173


 >gi|684950|gb|AAA62477.1|  (U20782) staphylococcal accessory regulator A
            [Staphylococcus aureus]
            Length = 124

Frame -3 hits (HSPs):                                       _____________ 
                        __________________________________________________
Database sequence:     |                   |                   |          | 124
                       0                  50                 100

  Minus Strand HSPs:

 Score = 62 (21.8 bits), Expect = 2.4, P = 0.90
 Identities = 11/31 (35%), Positives = 19/31 (61%), Frame = -3

Query:   224 TILVVNNCEDRKKINRILQKINMRFSSQLKE 132
             T+L++ N + RKKI  +L ++N R +    E
Sbjct:    91 TVLILVNAQQRKKIESLLSRVNKRITEANNE 121


 >gi|11282289|pir||E81734  conserved hypothetical protein TC0160 [imported] -
            Chlamydia muridarum (strain Nigg) >gi|7190197|gb|AAF39036.1|
            (AE002283) conserved hypothetical protein [Chlamydia muridarum]
            Length = 250

Frame  1 hits (HSPs):                               ________              
                        __________________________________________________
Database sequence:     |         |         |         |         |          | 250
                       0        50       100       150       200

  Plus Strand HSPs:

 Score = 66 (23.2 bits), Expect = 3.6, P = 0.97
 Identities = 16/37 (43%), Positives = 24/37 (64%), Frame = +1

Query:   130 FSFSWEENLILIFCKILLIFFLSSQLFTTKIVLFHKK 240
             F    +E+ IL F ++  I  LS +LF T++VLFH+K
Sbjct:   143 FVHETQEHEILFFNRLAKI--LSQRLFPTRLVLFHQK 177


 >gi|7468190|pir||D72018  conserved hypothetical protein CP0941 [imported] -
            Chlamydophila pneumoniae (strains CWL029 and AR39)
            >gi|4377247|gb|AAD19063.1| (AE001672) CT779 hypothetical protein
            [Chlamydophila pneumoniae CWL029] >gi|7189854|gb|AAF38724.1|
            (AE002252) conserved hypothetical protein [Chlamydophila pneumoniae
            AR39] >gi|8979299|dbj|BAA99133.1| (AP002548) CT779 hypothetical
            protein [Chlamydophila pneumoniae J138]
            Length = 225

Frame  1 hits (HSPs):                            __________               
                        __________________________________________________
Database sequence:     |          |           |          |          |     | 225
                       0         50         100        150        200

  Plus Strand HSPs:

 Score = 65 (22.9 bits), Expect = 3.9, P = 0.98
 Identities = 17/39 (43%), Positives = 24/39 (61%), Frame = +1

Query:   136 FSWEENL--ILIFCKILLIFFLSSQLFTTKIVLFHKKCDFF 252
             F +EEN   +L F ++  I  L+ QLF TK+ L H K + F
Sbjct:   116 FVYEENNEEVLFFNRLAKI--LTQQLFPTKLTLIHAKTNIF 154


 >gi|11349692|pir||G83297  hypothetical protein PA2791 [imported] - Pseudomonas
            aeruginosa (strain PAO1) >gi|9948873|gb|AAG06179.1|AE004706_9
            (AE004706) hypothetical protein [Pseudomonas aeruginosa]
            Length = 96

Frame  2 hits (HSPs):                     ______________                  
                        __________________________________________________
Database sequence:     |         |          |         |          |        | 96
                       0        20         40        60         80

  Plus Strand HSPs:

 Score = 60 (21.1 bits), Expect = 4.1, P = 0.98
 Identities = 12/25 (48%), Positives = 16/25 (64%), Frame = +2

Query:    38 ATGLV*YILVFHNCCMLLHMVLVKF 112
             A GL+ Y+LVF  C +LLH   + F
Sbjct:    37 APGLIAYLLVFPACALLLHSPALAF 61


 >gi|11355131|pir||C82246  hypothetical protein VC1072 [imported] - Vibrio
            cholerae  (group O1 strain N16961) >gi|9655539|gb|AAF94231.1|
            (AE004188) hypothetical protein [Vibrio cholerae]
            Length = 47

Frame  1 hits (HSPs):   _____________________________________             
                        __________________________________________________
Database sequence:     |                    |                    |        | 47
                       0                   20                   40

  Plus Strand HSPs:

 Score = 59 (20.8 bits), Expect = 4.2, P = 0.98
 Identities = 15/35 (42%), Positives = 18/35 (51%), Frame = +1

Query:   121 LWGFSFSWEENLILIFCKI--LLIFFLSSQLFTTK 219
             +WG+S SW  +L  IF K     I  LS  LF  K
Sbjct:     1 MWGYSDSWVNDLAAIFIKTCCFCISVLSDFLFMIK 35


 >gi|7430179|pir||F69780  two-component sensor histidine kinase homolog ydfH -
            Bacillus subtilis >gi|1881348|dbj|BAA19375.1| (AB001488) POBABLE
            SENSORY TRANSDUCTION HISTIDINE KINASE. [Bacillus subtilis]
            >gi|2632841|emb|CAB12348.1| (Z99106) similar to two-component
            sensor histidine kinase [YdfI] [Bacillus subtilis]
            Length = 407

Frame  1 hits (HSPs):      __________                                     
                        __________________________________________________
Database sequence:     |                  |                 |             | 407
                       0                150               300

  Plus Strand HSPs:

 Score = 68 (23.9 bits), Expect = 4.4, P = 0.99
 Identities = 26/77 (33%), Positives = 38/77 (49%), Frame = +1

Query:     7 PGFVLL*ILYSHRIGIVYTSIS*---LLYAFTHGVGEIFLLLWGFSFSW-EENLILIFCK 174
             PG   + ++Y   I + + S      LLYAFT  +  IF LL   S+ W ++ +IL F  
Sbjct:    27 PGLAFILMIYIASIVLQFVSGGWSILLLYAFTILIA-IFALLHWHSYRWVKKRVILYFAV 85

Query:   175 ILLIFFLSSQLFTTKIVL 228
               LI F  + L T   +L
Sbjct:    86 QGLITFALANLMTGFFIL 103


 >gi|10802923|gb|AAG23671.1|AF288091_16  (AF288091) SecY-independent transporter
            protein [Thraustochytrium aureum]
            Length = 248

Frame  3 hits (HSPs):      ___                                            
Frame  1 hits (HSPs):                             ____________            
                        __________________________________________________
Database sequence:     |         |         |          |         |         | 248
                       0        50       100        150       200

  Plus Strand HSPs:

 Score = 59 (20.8 bits), Expect = 4.6, Sum P(2) = 0.99
 Identities = 22/56 (39%), Positives = 27/56 (48%), Frame = +1

Query:   106 EIFLLLWGFSFSWEENLILI---FCKILLIFFLSS----QLFTTKIVLFHKKCDFF 252
             + FL    FSF  + NLILI       +  FF+S     QLF    VLF+K   FF
Sbjct:   130 KFFLFYKPFSFLIDFNLILIVEPLVNSIFHFFVSVFCLVQLFFWFFVLFYKSFSFF 185

 Score = 33 (11.6 bits), Expect = 4.6, Sum P(2) = 0.99
 Identities = 6/14 (42%), Positives = 9/14 (64%), Frame = +3

Query:    51 YSIY*YFITVVCFY 92
             Y ++  F+T V FY
Sbjct:    16 YFLFSVFLTFVLFY 29


 >gi|7510274|pir||T27212  hypothetical protein Y57G11B.2 - Caenorhabditis elegans
            >gi|3881175|emb|CAB16500.1| (Z99280) Y57G11B.2 [Caenorhabditis
            elegans]
            Length = 307

Frame  2 hits (HSPs):   _____                                             
Frame  1 hits (HSPs):       _____                                         
                        __________________________________________________
Database sequence:     |       |        |       |       |       |       | | 307
                       0      50      100     150     200     250     300

  Plus Strand HSPs:

 Score = 59 (20.8 bits), Expect = 5.0, Sum P(2) = 0.99
 Identities = 11/27 (40%), Positives = 16/27 (59%), Frame = +2

Query:    56 YILVFHNCCMLLHMVLVKFFY-YFGVS 133
             YIL   NC    H   ++FF+ +FG+S
Sbjct:     2 YILTLENCLTKKHFKKLRFFFLFFGIS 28

 Score = 37 (13.0 bits), Expect = 5.0, Sum P(2) = 0.99
 Identities = 11/26 (42%), Positives = 16/26 (61%), Frame = +1

Query:   163 IFCKILLIFFLSSQLFTTKIVLFHKK 240
             I CK L+I F + +L + KI   +KK
Sbjct:    27 ISCKFLIIIF-TIRLNSNKINNKYKK 51


 >gi|7304276|gb|AAF59310.1|  (AE003842) CG12845 gene product [Drosophila
            melanogaster]
            Length = 222

Frame  1 hits (HSPs):               _______                               
                        __________________________________________________
Database sequence:     |           |          |          |          |     | 222
                       0          50        100        150        200

  Plus Strand HSPs:

 Score = 64 (22.5 bits), Expect = 5.0, P = 0.99
 Identities = 11/33 (33%), Positives = 18/33 (54%), Frame = +1

Query:    97 GVGEIFLLLWGFSFSWEENLILIFCKILLIFFL 195
             G   + ++LWG+  +W EN   + C +  I FL
Sbjct:    55 GAAALLVVLWGYLSAWREN---VCCTVTFIIFL 84


 >gi|126263|sp|P09927|LHB_CHLAU  LIGHT-HARVESTING PROTEIN B-808/866, BETA CHAIN
            (ANTENNA PIGMENT PROTEIN, BETA CHAIN) (BACTERIOCHLOROPHYLL A
            BINDING PROTEIN) >gi|79603|pir||A25857 light-harvesting protein
            B-808/866 beta chain - Chloroflexus aurantiacus
            >gi|313698|emb|CAA52104.1| (X73899) B806-866 light-harvesting
            complex [Chloroflexus aurantiacus]
            >gi|10198160|gb|AAG15224.1|AF288462_4 (AF288462) PufB [Chloroflexus
            aurantiacus] >gi|225405|prf||1302182A antenna protein B806-866 beta
            [Chloroflexus aurantiacus]
            Length = 53

Frame  2 hits (HSPs):                ______________________________       
Annotated Domains:      __________________________________________________
                        __________________________________________________
Database sequence:     |                 |                  |             | 53
                       0                20                 40
__________________

Annotated Domains:
   DOMO                 DM00565: ANTENNACOMPLEXESBETASUBUNITS    5..51
   Entrez               Domain: CYTOPLASMIC (POTENTIAL).         1..25
   Entrez               Transmembrane region: POTENTIAL.         26..48
   Entrez               Domain: PERIPLASMIC (POTENTIAL).         49..53
   Entrez               binding site: BACTERIOCHLOROPHYLL (POTEN 24
   Entrez               metal-binding site: AXIAL LIGAND TO THE  42
   PFAM                 LHC: Antenna complex alpha/beta subunit  15..53
   PRODOM               PD048671: LHB_CHLAU                      1..21
   PRODOM               PD001979: LHB1(7) LHB2(7) LHB(6)         23..51
   PROSITE              ANTENNA_COMP_BETA: Antenna complexes bet 19..50
__________________


  Plus Strand HSPs:

 Score = 58 (20.4 bits), Expect = 5.3, P = 1.0
 Identities = 13/32 (40%), Positives = 18/32 (56%), Frame = +2

Query:    65 VFHNCCMLLHMVLVKFFYYFGVSLLVGRRTSY 160
             +F+N   LLH ++VK FY FGV   +     Y
Sbjct:    15 LFNNQDWLLHDIVVKSFYGFGVIAAIAHLLVY 46


 >gi|10954526  ref|NP_044165.1| M. jannaschii predicted coding region MJECL39
            [Methanococcus jannaschii] >gi|2496239|sp|Q60294|YZ39_METJA
            HYPOTHETICAL PROTEIN MJECL39 >gi|2129053|pir||F64514 hypothetical
            protein MJECL39 - Methanococcus jannaschii plasmid pURB800
            >gi|1522672|gb|AAC37108.1| (L77118) M. jannaschii predicted coding
            region MJECL39 [Methanococcus jannaschii]
            Length = 351

Frame -3 hits (HSPs):                                       _________     
                        __________________________________________________
Database sequence:     |                     |                    |       | 351
                       0                   150                  300

  Minus Strand HSPs:

 Score = 66 (23.2 bits), Expect = 5.9, P = 1.0
 Identities = 21/58 (36%), Positives = 31/58 (53%), Frame = -3

Query:   176 ILQKI--NMRFSSQLKEKPQSNKKISPTPC---VKAYNSYEILVYTIPILWLYKIYNK 18
             IL+KI  +++   Q+K   Q NKK+ P P    +   N  EI  Y+I  +   +IYNK
Sbjct:   258 ILRKIEEDVKKELQIKNAEQYNKKVEPIPVKLSIPIENYDEITHYSIVRVISKEIYNK 315


 >gi|127476|sp|P23039|MTPE_SULAC  MEMBRANE-ASSOCIATED ATPASE EPSILON CHAIN
            (SUL-ATPASE EPSILON) >gi|99257|pir||C36493 H+-transporting ATP
            synthase (EC 3.6.1.34) epsilon chain - Sulfolobus acidocaldarius
            >gi|152918|gb|AAA72942.1| (M57238) ATPase epsilon-subunit
            [Sulfolobus acidocaldarius]
            Length = 59

Frame -3 hits (HSPs):                   _________________________         
Annotated Domains:      _________________________________________________ 
                        __________________________________________________
Database sequence:     |                |                |                | 59
                       0               20               40
__________________

Annotated Domains:
   PRODOM               PD052431: MTPE_SULAC                     1..58
__________________


  Minus Strand HSPs:

 Score = 57 (20.1 bits), Expect = 6.8, P = 1.0
 Identities = 12/30 (40%), Positives = 19/30 (63%), Frame = -3

Query:   197 DRKKINRILQKINMRFSSQLKEKPQSNKKI 108
             D+KK N +L KINM +   LK++    +K+
Sbjct:    21 DQKK-NELLSKINMEYEKTLKQRLDELEKL 49


 >gi|5835693  ref|NP_008509.1|ND1_15044 NADH dehydrogenase subunit 1 [Ixodes
            hexagonus] >gi|7431928|pir||T11272 NADH dehydrogenase (ubiquinone)
            (EC 1.6.5.3) chain 1 - hardbacked tick (Ixodes hexagonus)
            mitochondrion >gi|4164555|gb|AAD05516.1| (AF081828) NADH
            dehydrogenase 1 [Ixodes hexagonus]
            Length = 313

Frame  1 hits (HSPs):           ___________                               
                        __________________________________________________
Database sequence:     |       |       |       |       |       |       |  | 313
                       0      50     100     150     200     250     300

  Plus Strand HSPs:

 Score = 64 (22.5 bits), Expect = 8.4, P = 1.0
 Identities = 20/67 (29%), Positives = 37/67 (55%), Frame = +1

Query:    31 LYSHRIGIVYTSIS*LLYAFTHGVGEIFLL-LWGFSFSWEENLILIFCKILLIFFLSSQL 207
             L+S  + +++  I+ + Y  +  V  I ++ LW F FSW+ N ILI  +  ++F L    
Sbjct:    56 LFSKEMNMMFY-INMIFYIISSVVLLILMMSLW-FLFSWDYNQILI--EYGMVFLLCISS 111

Query:   208 FTTKIVLF 231
              +  ++LF
Sbjct:   112 LSVYVILF 119


 >gi|7451713|pir||A72100  4-hydroxybenzoate octaprenyltransferase CP0496
            [imported] - Chlamydophila pneumoniae (strains CWL029 and AR39)
            >gi|4376537|gb|AAD18414.1| (AE001611) Benzoate
            Octaphenyltransferase [Chlamydophila pneumoniae CWL029]
            >gi|7189415|gb|AAF38326.1| (AE002211) 4-hydroxybenzoate
            octaprenyltransferase [Chlamydophila pneumoniae AR39]
            >gi|8978638|dbj|BAA98475.1| (AP002545) benzoate
            octaphenyltransferase [Chlamydophila pneumoniae J138]
            Length = 297

Frame  1 hits (HSPs):                    _______                          
                        __________________________________________________
Database sequence:     |        |       |        |       |       |        | 297
                       0       50     100      150     200     250

  Plus Strand HSPs:

 Score = 63 (22.2 bits), Expect = 10., P = 1.0
 Identities = 16/35 (45%), Positives = 18/35 (51%), Frame = +1

Query:   154 LILIFCKILLIFFLSSQLFTTKIVL-FHKKCDFFC 255
             L L  CKIL IF L     T  IV  + K+  FFC
Sbjct:   105 LFLFLCKILRIFSLGIASLTLMIVYPYMKRVTFFC 139


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

  ctxfactor=5.98

  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    0.369   0.171   0.712  
               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    0.368   0.169   0.670  
               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    0.351   0.162   0.561  
               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    0.357   0.158   0.569  
               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    0.361   0.161   0.538  
               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    0.325   0.139   0.420  
               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      118        84       10.  61 3  12 22  0.12    31
                                                    28  0.096   33
   +2      0      119        85       10.  61 3  12 22  0.12    31
                                                    28  0.098   33
   +1      0      119        85       10.  61 3  12 22  0.12    31
                                                    28  0.098   33
   -1      0      119        85       10.  61 3  12 22  0.12    31
                                                    28  0.098   33
   -2      0      119        85       10.  61 3  12 22  0.12    31
                                                    28  0.098   33
   -3      0      118        84       10.  61 3  12 22  0.12    31
                                                    28  0.096   33


Statistics:

  Database:  /usr/local/dot5/sl_home/beauty/seqdb/blast/nr
    Title:  nr
    Release date:  unknown
    Posted date:  4:06 PM CST Feb 28, 2001
    Format:  BLAST
  # of letters in database:  197,782,623
  # of sequences in database:  625,274
  # of database sequences satisfying E:  22
  No. of states in DFA:  571 (56 KB)
  Total size of DFA:  135 KB (192 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t  Elapsed: 00:00:00
  No. of threads or processors used:  6
  Search cpu time:  90.11u 1.11s 91.22t  Elapsed: 00:00:16
  Total cpu time:  90.13u 1.15s 91.28t  Elapsed: 00:00:16
  Start:  Wed Jan 23 14:22:16 2002   End:  Wed Jan 23 14:22:32 2002


Annotated Domains Database:   March 14, 2000 

Release Date:  March 14, 2000