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

   26   0.0  0.0  0.0  'D17E10_I22_09.ab1'    568  593   (21) +  AT_rich  Low_complexity     1   26    (0)      

Alignments:
26  0.00  0.00  0.00  'D17E10_I22_09.ab1'  568  593  (21)  AT_rich#Low_complexity  1  26  (274)  5

  'D17E10_I22_09.    568 ATATATTATTTATTATAATTATAATA 593    
                          v v  v vv  vvvv vv  v  vv
  AT_rich#Low_com      1 AAAAATAAAATAAATAATATAAAAAT 26

Transitions / transversions = 0.00 (0 / 14)
Gap_init rate = 0.00 (0 / 26), avg. gap size = 0.00 (0 / 0)  

Masked Sequence:
>'D17E10_I22_09.ab1'
GGCTTCCTCCTTCTTTCCGTTTCGGTGTGCGCCATCGTAGAAGTGAAGAT
NCAGTTNGGGATTTTTCGATTCGCTCTCAATTTGCAGTGCGTGAGTGAAG
CACATGGATACTTCCGAATTGCCCAACCTAAAGAAATGGATTGTGATGTA
TCCCGTTTACATAAACTCCAAGAAAACGATGGCCGAAGGAAGGCGCATTG
GCCTCGCCAAAGCCTGCGAAAATCCTACTTGCGCCGAAATCGGTGATTGC
TGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGATAGACAAGGCGTACCC
TCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTGTTGCTTAAGAAGGAGG
ATGGGACTCTCTTTAATTCCGCCATCTCATCAAGAAAGCAACTAATGGTA
AAGGTTGCAGAGATGGTACCTAGGCATCATGGAAGGACCAAGAAGCAGGA
TCCTGCATCAACATCAACTGCTGGACCTTCCACCAAATCTGGGAAGGGTG
GAAAAAAGAGGAGATAATTTTGTGTTTGAACATTGTCTTACATGTGTGAT
TTCGAGTGTTGTGCCGGNNNNNNNNNNNNNNNNNNNNNNNNNNGGACTAA
TTACTACCACGGAG

Summary:
==================================================
file name: /repeatmasker/tmp/RM2seq
sequences:            1
total length:       614 bp
GC level:         45.26 %
bases masked:        26 bp (  4.23 %)
==================================================
               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:       0            0 bp     0.00 %
Low complexity:       1           26 bp     4.23 %
==================================================

* 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=  'D17E10_I22_09.ab1'
        (614 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:      = 3 Sequences     : less than 3 sequences

 EXPECTation Threshold
 (E parameter)
    |
    V   Observed Counts-->
  10000 730 170 |========================================================
   6310 560 105 |===================================
   3980 455  96 |================================
   2510 359 109 |====================================
   1580 250  75 |=========================
   1000 175  58 |===================
    631 117  24 |========
    398  93  27 |=========
    251  66  17 |=====
    158  49  13 |====
    100  36   6 |==
   63.1  30   3 |=
   39.8  27   6 |==
   25.1  21   2 |:
   15.8  19   2 |:
 >>>>>>>>>>>>>>>>>>>>>  Expect = 10.0, Observed = 17  <<<<<<<<<<<<<<<<<
   10.0  17   1 |:
   6.31  16   1 |:
   3.98  15   0 |
   2.51  15   0 |
   1.58  15   0 |
   1.00  15   0 |
   0.63  15   0 |
   0.40  15   0 |
   0.25  15   0 |
   0.16  15   0 |
   0.10  15   0 |
  0.063  15   0 |
  0.040  15   0 |
  0.025  15   0 |
  0.016  15   0 |
  0.010  15   1 |:
 0.0063  14   1 |:


                                                                     Smallest
                                                                       Sum
                                                     Reading  High  Probability
Sequences producing High-scoring Segment Pairs:        Frame Score  P(N)      N
gi|1711507|sp|P49964|SR19_ORYSASIGNAL RECOGNITION PAR... +2   494  3.4e-46   1
gi|8778511|gb|AAF79519.1|AC023673_7(AC023673) F21D18.... +2   369  5.9e-33   1
gi|4507213ref|NP_003126.1| signal recognition particl... +2   279  2.0e-23   1
gi|11417152ref|XP_003959.1| signal recognition partic... +2   279  2.0e-23   1
gi|7295253|gb|AAF50575.1|(AE003559) Srp19 gene produc... +2   219  4.6e-17   1
gi|1711506|sp|P49963|SR19_DROMESIGNAL RECOGNITION PAR... +2   213  2.0e-16   1
gi|3334324|sp|O14415|SC65_CANALSIGNAL RECOGNITION PAR... +2   186  1.5e-13   1
gi|1174433|sp|P41922|SR19_YARLISIGNAL RECOGNITION PAR... +2   185  3.3e-13   1
gi|3024581|sp|O13475|SC65_KLULASIGNAL RECOGNITION PAR... +2   168  1.2e-11   1
gi|6323531ref|NP_013602.1| signal recognition particl... +2   162  8.1e-11   1
gi|7500737|pir||T33052hypothetical protein F37F2.2 - ... +2   140  5.8e-08   1
gi|12230627|sp|O26267|SR19_METTHSIGNAL RECOGNITION PA... +2   125  4.2e-07   1
gi|11498857ref|NP_070086.1| signal recognition partic... +2   116  4.0e-06   1
gi|12230637|sp|Q9HQ21|SR19_HALN1SIGNAL RECOGNITION PA... +2    90  0.0046    1
gi|2500879|sp|Q58440|SR19_METJASIGNAL RECOGNITION PAR... +2    88  0.0077    1
gi|7492975|pir||T40919probable signal recognition par... +2    80  0.996     1
gi|5757785|gb|AAD50587.1|(AF089101) protein kinase 5 ... -3    73  0.9994    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|1711507|sp|P49964|SR19_ORYSA  SIGNAL RECOGNITION PARTICLE 19 KD PROTEIN
            (SRP19) >gi|7450304|pir||T03292 probable signal recognition
            particle 19 K protein - rice >gi|624221|gb|AAB65810.1| (U19030)
            signal recognition particle 19 kDa protein subunit SRP19 [Oryza
            sativa]
            Length = 136

Frame  2 hits (HSPs):   __________________________________________________
Annotated Domains:      __________________________________________________
                        __________________________________________________
Database sequence:     |                  |                 |             | 136
                       0                 50               100
__________________

Annotated Domains:
   DOMO                 DM02554:                                 1..133
   Entrez               Domain: BASIC REGION, POTENTIALLY INVOLV 127..136
   PFAM                 SRP19: SRP19 protein                     14..110
   PRODOM               PD006609: SR19(5) SC65(2)                15..105
__________________


  Plus Strand HSPs:

 Score = 494 (173.9 bits), Expect = 3.4e-46, P = 3.4e-46
 Identities = 91/137 (66%), Positives = 115/137 (83%), Frame = +2

Query:   104 MDTSEL-PNLKKWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAI 280
             MD  +L  ++KKW V+YPVY+NSKKT+AEGRRI   KAC +PTC EI DCCS+LK+P AI
Sbjct:     1 MDGGDLRSSIKKWNVIYPVYLNSKKTVAEGRRIASGKACPDPTCVEIADCCSHLKIPHAI 60

Query:   281 EIDKAYPRDFMQRGRVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPRHHGRTKKQDPAS 460
             E+DKAYPRDF Q GRVRV LKK+DG+  N AI ++KQLM+++AE+VP+HHGRTKKQ+PA+
Sbjct:    61 ELDKAYPRDFFQVGRVRVQLKKDDGSPVNPAIKTKKQLMIQIAELVPKHHGRTKKQEPAA 120

Query:   461 TSTAGPSTKSGKGGKKRR 514
             +STAG  T  GKGGKK++
Sbjct:   121 SSTAG--TSKGKGGKKKK 136


 >gi|8778511|gb|AAF79519.1|AC023673_7  (AC023673) F21D18.11 [Arabidopsis
            thaliana]
            Length = 242

Frame  2 hits (HSPs):   ______________________               _____________
                        __________________________________________________
Database sequence:     |          |         |         |          |        | 242
                       0         50       100       150        200

  Plus Strand HSPs:

 Score = 369 (129.9 bits), Expect = 5.9e-33, P = 5.9e-33
 Identities = 69/107 (64%), Positives = 88/107 (82%), Frame = +2

Query:   104 MDTSELPNLKKWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIE 283
             MD+  + N+KKW+V+YPVYINSKKT+AEGRRI ++K+CENP C EI DCC +LKLP A+E
Sbjct:     1 MDSGTI-NIKKWVVIYPVYINSKKTVAEGRRISVSKSCENPNCIEISDCCKHLKLPSAVE 59

Query:   284 IDKAYPRDFMQRGRVRVLLKKEDGTLFNSAISS---RKQLMVKVAEMV 418
             IDKAYPRDFMQ GRVRV LK+EDGTL N AI+S   +  LM+ +++ +
Sbjct:    60 IDKAYPRDFMQVGRVRVQLKREDGTLLNPAITSMLPKYHLMLSLSDFL 107

 Score = 130 (45.8 bits), Expect = 3.9e-06, P = 3.9e-06
 Identities = 32/60 (53%), Positives = 40/60 (66%), Frame = +2

Query:   362 FNSAISSRKQLMVKVAEMVPRHHGRTKKQD--------P-ASTSTAGPSTKSGKGGKKRR 514
             F    S+ K LM K+AE+VPRH  R KKQ+        P A+TST+G S+KSGKGGKK+R
Sbjct:   183 FERKESTWKHLMQKIAELVPRHPERVKKQEAQKAKKQEPQATTSTSGTSSKSGKGGKKKR 242


 >gi|4507213  ref|NP_003126.1| signal recognition particle 19kD [Homo sapiens]
            >gi|134882|sp|P09132|SR19_HUMAN SIGNAL RECOGNITION PARTICLE 19 KD
            PROTEIN (SRP19) >gi|88606|pir||S01700 signal recognition particle
            19K protein - human >gi|36113|emb|CAA31280.1| (X12791) 19kD
            SRP-protein (AA 1 - 144) [Homo sapiens]
            Length = 144

Frame  2 hits (HSPs):       ______________________________________________
                        __________________________________________________
Database sequence:     |                 |                |               | 144
                       0                50              100

  Plus Strand HSPs:

 Score = 279 (98.2 bits), Expect = 2.0e-23, P = 2.0e-23
 Identities = 63/131 (48%), Positives = 83/131 (63%), Frame = +2

Query:   134 KWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPR--- 304
             ++I +YP Y+N+KKT+AEGRRI ++KA ENPT  EI D CS + L   +E +K Y R   
Sbjct:    14 RFICIYPAYLNNKKTIAEGRRIPISKAVENPTATEIQDVCSAVGLNVFLEKNKMYSREWN 73

Query:   305 -DFMQRGRVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPRHHGRTKKQDPASTSTA-GP 478
              D   RGRVRV LK+EDG+L      SRK +M+  AEM+P+   RT+K   A  S   G 
Sbjct:    74 RDVQYRGRVRVQLKQEDGSLCLVQFPSRKSVMLYAAEMIPKLKTRTQKTGGADQSLQQGE 133

Query:   479 STKSGKGGKKR 511
              +K GKG KK+
Sbjct:   134 GSKKGKGKKKK 144


 >gi|11417152  ref|XP_003959.1| signal recognition particle 19kD [Homo sapiens]
            Length = 171

Frame  2 hits (HSPs):              _______________________________________
                        __________________________________________________
Database sequence:     |              |             |              |      | 171
                       0             50           100            150

  Plus Strand HSPs:

 Score = 279 (98.2 bits), Expect = 2.0e-23, P = 2.0e-23
 Identities = 63/131 (48%), Positives = 83/131 (63%), Frame = +2

Query:   134 KWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPR--- 304
             ++I +YP Y+N+KKT+AEGRRI ++KA ENPT  EI D CS + L   +E +K Y R   
Sbjct:    41 RFICIYPAYLNNKKTIAEGRRIPISKAVENPTATEIQDVCSAVGLNVFLEKNKMYSREWN 100

Query:   305 -DFMQRGRVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPRHHGRTKKQDPASTSTA-GP 478
              D   RGRVRV LK+EDG+L      SRK +M+  AEM+P+   RT+K   A  S   G 
Sbjct:   101 RDVQYRGRVRVQLKQEDGSLCLVQFPSRKSVMLYAAEMIPKLKTRTQKTGGADQSLQQGE 160

Query:   479 STKSGKGGKKR 511
              +K GKG KK+
Sbjct:   161 GSKKGKGKKKK 171


 >gi|7295253|gb|AAF50575.1|  (AE003559) Srp19 gene product [Drosophila
            melanogaster]
            Length = 160

Frame  2 hits (HSPs):        _____________________________________________
                        __________________________________________________
Database sequence:     |               |              |               |   | 160
                       0              50            100             150

  Plus Strand HSPs:

 Score = 219 (77.1 bits), Expect = 4.6e-17, P = 4.6e-17
 Identities = 56/142 (39%), Positives = 82/142 (57%), Frame = +2

Query:   125 NLKKWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPR 304
             ++++WI +YP YIN KKT  EGRR+      +NP+  EI D  S   L F +E +K Y R
Sbjct:    19 DMERWICIYPAYINRKKTRQEGRRLPKENCVDNPSYIEIRDVLSVSNLQFLME-NKKYCR 77

Query:   305 DF---MQ-RGRVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPR-----------HHGRT 439
             +    M+ RGRVRV L+  DGTL+N+   +R+ +M+ +A  +P+           +H ++
Sbjct:    78 ENSSEMEFRGRVRVQLRNVDGTLYNNDFPTRESIMLHIASKIPQLKTRQNKSGDSYHQQS 137

Query:   440 KKQDPASTSTAGPSTKSGKGGKKRR 514
             + Q  AS S  G   K GKG  KRR
Sbjct:   138 QPQSNASGSGGGGGGKKGKG--KRR 160


 >gi|1711506|sp|P49963|SR19_DROME  SIGNAL RECOGNITION PARTICLE 19 KDA PROTEIN
            (SRP19) >gi|1016766|gb|AAA79181.1| (U35682) signal recognition
            particle 19 kDa protein [Drosophila melanogaster]
            Length = 163

Frame  2 hits (HSPs):          ___________________________________________
Annotated Domains:      __________________________________________________
                        __________________________________________________
Database sequence:     |               |              |              |    | 163
                       0              50            100            150
__________________

Annotated Domains:
   DOMO                 DM02554:                                 14..162
   Entrez               Domain: POLY-GLY.                        148..155
   Entrez               Domain: BASIC REGION, POTENTIALLY INVOLV 156..163
   PFAM                 SRP19: SRP19 protein                     27..126
   PRODOM               PD062342: SR19_DROME                     1..27
   PRODOM               PD006609: SR19(5) SC65(2)                29..96
   PRODOM               PD062346: SR19_DROME                     98..145
__________________


  Plus Strand HSPs:

 Score = 213 (75.0 bits), Expect = 2.0e-16, P = 2.0e-16
 Identities = 56/139 (40%), Positives = 78/139 (56%), Frame = +2

Query:   134 KWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDF- 310
             +WI +YP YIN KKT  EGRR+      +NP+  EI D  S   L F +E +K Y R+  
Sbjct:    25 RWICIYPAYINRKKTRQEGRRLPKENCVDNPSYIEIRDAVSVSNLQFLME-NKKYCRENS 83

Query:   311 --MQ-RGRVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPR-----------HHGRTKKQ 448
               M+ RGRVRV L+  DGTL+N    +R+ +M+ +A  +P+           +H +++ Q
Sbjct:    84 SEMEFRGRVRVQLRNVDGTLYNIDFPTRESIMLHIASKIPQLKTRQNKSGDSYHQQSQPQ 143

Query:   449 DPASTSTAGPSTKSGKGGKKRR 514
               AS S  G   K GKG  KRR
Sbjct:   144 SNASGSGGGGGGKKGKG--KRR 163


 >gi|3334324|sp|O14415|SC65_CANAL  SIGNAL RECOGNITION PARTICLE SEC65 SUBUNIT
            >gi|2580501|gb|AAC33399.1| (U69696) Sec65 [Candida albicans]
            Length = 275

Frame  2 hits (HSPs):                    ____________________             
Annotated Domains:          ______________________________________________
                        __________________________________________________
Database sequence:     |        |         |        |        |        |    | 275
                       0       50       100      150      200      250
__________________

Annotated Domains:
   PFAM                 SRP19: SRP19 protein                     94..192
   PRODOM               PD062347: SC65_CANAL                     25..93
   PRODOM               PD006609: SR19(5) SC65(2)                95..160
   PRODOM               PD029298: SC65(2)                        178..271
__________________


  Plus Strand HSPs:

 Score = 186 (65.5 bits), Expect = 1.5e-13, P = 1.5e-13
 Identities = 37/108 (34%), Positives = 60/108 (55%), Frame = +2

Query:   143 VMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDFMQRG 322
             ++YP Y +  ++  +GRR+ + +A ENP    I D C  L LP  +E+DK +P+DF   G
Sbjct:    95 IIYPCYFDINRSHKQGRRVSIDRAVENPLATTISDACRRLGLPVFLELDKTHPQDFGNPG 154

Query:   323 RVRVLLKK--EDGTLFNSAISSRKQLMVKVAEMVPRHHGRTKKQDPAS 460
             RV+VL K   ++G L N  + +++ L   +AE +  H    +   P S
Sbjct:   155 RVKVLFKAVFDNGKLINPKLQTKRVLFNVIAEYLSEHPTTLESIGPKS 202


 >gi|1174433|sp|P41922|SR19_YARLI  SIGNAL RECOGNITION PARTICLE 19 KD PROTEIN
            HOMOLOG >gi|630380|pir||S44157 signal recognition particle protein
            (SRP19) - yeast (Yarrowia lipolytica) >gi|7493909|pir||JC6516
            signal recognition particle protein Sec65 - yeast (Yarrowia
            lipolytica) >gi|473183|emb|CAA80293.1| (Z22570) signal recognition
            particle protein (SRP19) [Yarrowia lipolytica]
            >gi|5834780|emb|CAB55335.1| (AJ006754) SEC65 protein [Yarrowia
            lipolytica]
            Length = 310

Frame  2 hits (HSPs):                    ____________________             
Annotated Domains:      __________________________________________________
                        __________________________________________________
Database sequence:     |       |       |        |       |       |       | | 310
                       0      50     100      150     200     250     300
__________________

Annotated Domains:
   DOMO                 DM02554:                                 109..259
   PFAM                 SRP19: SRP19 protein                     122..219
   PRODOM               PD077765: SR19_YARLI                     1..121
   PRODOM               PD006609: SR19(5) SC65(2)                123..188
   PRODOM               PD077313: SR19_YARLI                     190..309
__________________


  Plus Strand HSPs:

 Score = 185 (65.1 bits), Expect = 3.3e-13, P = 3.3e-13
 Identities = 42/119 (35%), Positives = 64/119 (53%), Frame = +2

Query:    98 KHMDTSELPNLKKWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFA 277
             K+ +  E  + K W ++YPVY +  KT+ EGRR+ L  A ENP    I + C  L LP  
Sbjct:   109 KNQEIQE-SDFKDWQIVYPVYFDKNKTVGEGRRVPLELAVENPLGQTIAEACKMLTLPSI 167

Query:   278 IEIDKAYPRDFMQRGRVRVLLKKEDGT-LFNSAISSRKQLMVKVAEMVPRHHGRTKKQDP 454
              E  K +P+D+   GRVRV LK +    L   ++ +++ L   +A+ +  H   TK+  P
Sbjct:   168 YEAHKTHPKDWANPGRVRVQLKDDPALGLPPHSVKNKRHLFRLIAQYMKEHP--TKEVTP 225


 >gi|3024581|sp|O13475|SC65_KLULA  SIGNAL RECOGNITION PARTICLE SEC65 SUBUNIT
            >gi|2415678|emb|CAA04695.1| (AJ001358) signal recognition particle
            subunit [Kluyveromyces lactis]
            Length = 181

Frame  2 hits (HSPs):   ___________________________                       
Annotated Domains:      ___________________________                       
                        __________________________________________________
Database sequence:     |             |             |             |        | 181
                       0            50           100           150
__________________

Annotated Domains:
   PFAM                 SRP19: SRP19 protein                     3..98
__________________


  Plus Strand HSPs:

 Score = 168 (59.1 bits), Expect = 1.2e-11, P = 1.2e-11
 Identities = 36/95 (37%), Positives = 54/95 (56%), Frame = +2

Query:   143 VMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDFMQRG 322
             ++YP Y ++++T A+GRR       ENP    I D    L +P   E  K +P+DF   G
Sbjct:     4 MLYPCYFDTRRTHAQGRRAPKDLCVENPLAKTIADAARSLGIPSIFEGSKTHPQDFGNPG 63

Query:   323 RVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPRH 427
             RVRVL+K E+G  F S I +++ LM ++ E +  H
Sbjct:    64 RVRVLIK-ENGKPFVSGIDNKRVLMKRIGEYLKSH 97


 >gi|6323531  ref|NP_013602.1| signal recognition particle subunit, homologue of
            mammalian SRP19; Sec65p [Saccharomyces cerevisiae]
            >gi|266993|sp|P29478|SC65_YEAST SIGNAL RECOGNITION PARTICLE SEC65
            SUBUNIT >gi|101615|pir||S21731 signal recognition particle chain
            SEC65 - yeast  (Saccharomyces cerevisiae)
            >gi|671640|emb|CAA46666.1| (X65783) SEC65 [Saccharomyces
            cerevisiae] >gi|798895|emb|CAA89113.1| (Z49210) Sec65p
            [Saccharomyces cerevisiae] >gi|228680|prf||1808303A SEC65 gene
            [Saccharomyces cerevisiae]
            Length = 273

Frame  2 hits (HSPs):                   ____________________              
                        __________________________________________________
Database sequence:     |        |         |        |        |        |    | 273
                       0       50       100      150      200      250

  Plus Strand HSPs:

 Score = 162 (57.0 bits), Expect = 8.1e-11, P = 8.1e-11
 Identities = 38/106 (35%), Positives = 58/106 (54%), Frame = +2

Query:   116 ELPNLKKWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKA 295
             +L  +K++ V+YP Y +  ++  EGRR+    A ENP    + D    L +    E +K 
Sbjct:    91 DLEEVKRFQVLYPCYFDINRSHKEGRRVPKELAVENPLAKTMADAVRELGILCIFEGEKC 150

Query:   296 YPRDFMQRGRVRVLLKKEDGTLFNSAIS---SRKQLMVKVAEMVPRH 427
             +P+DF   GR+RVL K E+G L  +A      ++QLM  V E + RH
Sbjct:   151 HPQDFGNPGRIRVLFK-ENGQLIGAATKFKGGKRQLMKAVGEYMKRH 196


 >gi|7500737|pir||T33052  hypothetical protein F37F2.2 - Caenorhabditis elegans
            >gi|3150480|gb|AAC16997.1| (AF067212) contains similarity to signal
            recognition particle 19 kDa protein [Caenorhabditis elegans]
            Length = 249

Frame  2 hits (HSPs):         _____________________                       
                        __________________________________________________
Database sequence:     |         |         |         |         |          | 249
                       0        50       100       150       200

  Plus Strand HSPs:

 Score = 140 (49.3 bits), Expect = 5.8e-08, P = 5.8e-08
 Identities = 38/101 (37%), Positives = 55/101 (54%), Frame = +2

Query:   212 ACENPTCAEIGDCCSYLKLPFAIEIDKAYPRD----FMQRGRVRVLLKKEDGTLFNSAIS 379
             A ENPT  EI D  + +     +E  K YPRD    F  +GRVRV LK +DGT  +    
Sbjct:    35 AVENPTSVEIHDVLAAVGFNPLLERTKCYPRDGERDFEVQGRVRVQLKNDDGTAKHEQ-K 93

Query:   380 SRKQLMVKVAEMVPRHHGRTKKQDPASTSTAGPSTKSGKGGKKRR 514
             +R ++   VAEM+P+     K + P  T+ +  S+ +   GKK +
Sbjct:    94 TRDEIFKMVAEMIPK----LKTRQPGYTAPSVASSSAAAAGKKNK 134


 >gi|12230627|sp|O26267|SR19_METTH  SIGNAL RECOGNITION PARTICLE 19 KDA PROTEIN
            (SRP19) >gi|7450303|pir||E69087 signal recognition particle 19 kDa
            protein - Methanobacterium thermoautotrophicum (strain Delta H)
            >gi|2621207|gb|AAB84671.1| (AE000804) signal recognition particle
            19 kDa protein [Methanothermobacter thermautotrophicus]
            Length = 91

Frame  2 hits (HSPs):    ____________________________________             
                        __________________________________________________
Database sequence:     |          |          |          |          |      | 91
                       0         20         40         60         80

  Plus Strand HSPs:

 Score = 125 (44.0 bits), Expect = 4.2e-07, P = 4.2e-07
 Identities = 26/66 (39%), Positives = 44/66 (66%), Frame = +2

Query:   140 IVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDFMQR 319
             ++++P Y++S+K+ +EGRR+ L  A E+PT +EI      L+L  ++E D+AYP  + + 
Sbjct:     3 LIIWPTYLDSRKSRSEGRRVPLEYAVESPTASEILRAARKLQLEASMESDRAYPPSWWES 62

Query:   320 -GRVRV 334
              GRV V
Sbjct:    63 SGRVVV 68


 >gi|11498857  ref|NP_070086.1| signal recognition particle, subunit SRP19
            (srp19) [Archaeoglobus fulgidus] >gi|12230628|sp|O29010|SR19_ARCFU
            SIGNAL RECOGNITION PARTICLE 19 KDA PROTEIN (SRP19)
            >gi|7450302|pir||A69407 signal recognition particle, subunit SRP19
            (srp19) homolog - Archaeoglobus fulgidus >gi|2649324|gb|AAB89988.1|
            (AE001017) signal recognition particle, subunit SRP19 (srp19)
            [Archaeoglobus fulgidus]
            Length = 104

Frame  2 hits (HSPs):   _______________________________________________   
                        __________________________________________________
Database sequence:     |         |        |         |        |         |  | 104
                       0        20       40        60       80       100

  Plus Strand HSPs:

 Score = 116 (40.8 bits), Expect = 4.0e-06, P = 4.0e-06
 Identities = 38/106 (35%), Positives = 57/106 (53%), Frame = +2

Query:   134 KWIVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDFM 313
             K  V++ V ++SKK+ AEGRRI    A  N    E+ + C  L L F  E +K YP+ + 
Sbjct:     2 KECVVWTVNLDSKKSRAEGRRIPRRFAVPNVKLHELVEACKELGLKFRAE-EKKYPKSWW 60

Query:   314 QRGRVRVLLKKEDGTLFNSAISSRKQLMVKVAEMVPRHHGRTKKQD 451
             + G  RV+++K  GT     I    +L  K+AE+  R   R +K+D
Sbjct:    61 EEGG-RVVVEKR-GTKTKLMI----ELARKIAEI--REQKREQKKD 98


 >gi|12230637|sp|Q9HQ21|SR19_HALN1  SIGNAL RECOGNITION PARTICLE 19 KDA PROTEIN
            (SRP19) >gi|10580876|gb|AAG19696.1| (AE005056) signal recognition
            particle; Srp19 [Halobacterium sp. NRC-1]
            Length = 92

Frame  2 hits (HSPs):     ______________________________________          
                        __________________________________________________
Database sequence:     |          |          |          |         |       | 92
                       0         20         40         60        80

  Plus Strand HSPs:

 Score = 90 (31.7 bits), Expect = 0.0046, P = 0.0046
 Identities = 22/70 (31%), Positives = 34/70 (48%), Frame = +2

Query:   143 VMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDFMQRG 322
             V++P Y ++  +  +GRR+ +  A E P+  EI      +     +E D AYPR      
Sbjct:     5 VIWPAYFDAALSRRDGRRVPMELAVEEPSIDEIATAVQQVGYDAVVERDVAYPRRHWDAA 64

Query:   323 RVRVLLKKED 352
               RVL+K  D
Sbjct:    65 G-RVLVKDAD 73


 >gi|2500879|sp|Q58440|SR19_METJA  SIGNAL RECOGNITION PARTICLE 19 KDA PROTEIN
            (SRP19) >gi|2128641|pir||A64429 hypothetical protein MJ1034 -
            Methanococcus jannaschii >gi|1499877|gb|AAB99038.1| (U67546) signal
            recognition particle, subunit SRP19 [Methanococcus jannaschii]
            Length = 87

Frame  2 hits (HSPs):   ________________________________                  
Annotated Domains:      __________________________________________________
                        __________________________________________________
Database sequence:     |          |           |          |           |    | 87
                       0         20          40         60          80
__________________

Annotated Domains:
   PFAM                 SRP19: SRP19 protein                     1..87
   PRODOM               PD006609: SR19(5) SC65(2)                1..83
__________________


  Plus Strand HSPs:

 Score = 88 (31.0 bits), Expect = 0.0077, P = 0.0077
 Identities = 20/55 (36%), Positives = 30/55 (54%), Frame = +2

Query:   140 IVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPR 304
             ++++P YI+ KK+  EGR++    A E P+  +I      L L   I  DK YPR
Sbjct:     1 MIIWPSYIDKKKSRREGRKVPEELAIEKPSLKDIEKALKKLGLEPKIYRDKRYPR 55


 >gi|7492975|pir||T40919  probable signal recognition particle subunit - fission
            yeast (Schizosaccharomyces pombe) >gi|4008563|emb|CAA22484.1|
            (AL034490) putative signal recognition particle subunit
            [Schizosaccharomyces pombe]
            Length = 199

Frame  2 hits (HSPs):   __________________                                
                        __________________________________________________
Database sequence:     |            |           |            |            | 199
                       0           50         100          150

  Plus Strand HSPs:

 Score = 80 (28.2 bits), Expect = 5.6, P = 1.0
 Identities = 21/70 (30%), Positives = 34/70 (48%), Frame = +2

Query:   140 IVMYPVYINSKKTMAEGRRIGLAKACENPTCAEIGDCCSYLKLPFAIEIDKAYPRDFMQR 319
             I++YP+Y + K      R +   KA  NP    I D    L     +E  K +P D++  
Sbjct:     4 IILYPIYFD-KSRPRRFRCVPKDKAILNPLAKNIADVVRDLGYKCKLEPLKTHPADWVNP 62

Query:   320 GRVRVLLKKE 349
             GRV ++L ++
Sbjct:    63 GRVEMVLPEK 72


 >gi|5757785|gb|AAD50587.1|  (AF089101) protein kinase 5 [Salvia columbariae]
            Length = 118

Frame -3 hits (HSPs):               _______________________               
                        __________________________________________________
Database sequence:     |                    |                    |        | 118
                       0                   50                  100

  Minus Strand HSPs:

 Score = 73 (25.7 bits), Expect = 7.4, P = 1.0
 Identities = 19/54 (35%), Positives = 25/54 (46%), Frame = -3

Query:   492 PDLVEGPAVDVDAGSCFLVLP*CLGTISATFTISCFLDEMAELKRVPSSFLSNT 331
             P L+   A++ D GS F V P C+   SA    +CFL  +   K    S  S T
Sbjct:    30 PTLIRNSALNSDRGSGFCVQPACIEPTSACIQPTCFLPRLFPQKSKKKSGKSRT 83


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

  ctxfactor=5.97

  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    0.349   0.155   0.552  
               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    0.336   0.145   0.475  
               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    0.346   0.153   0.553  
               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    0.340   0.141   0.508  
               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    0.343   0.152   0.505  
               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    0.341   0.148   0.481  
               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      204       193       10.  76 3  12 22  0.12    34
                                                    31  0.099   38
   +2      0      204       193       10.  76 3  12 22  0.12    34
                                                    31  0.099   38
   +1      0      204       193       10.  76 3  12 22  0.12    34
                                                    31  0.099   38
   -1      0      204       194       10.  76 3  12 22  0.091   35
                                                    31  0.10    38
   -2      0      204       193       10.  76 3  12 22  0.12    34
                                                    31  0.099   38
   -3      0      204       193       10.  76 3  12 22  0.12    34
                                                    31  0.099   38


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:  17
  No. of states in DFA:  595 (59 KB)
  Total size of DFA:  226 KB (256 KB)
  Time to generate neighborhood:  0.01u 0.01s 0.02t  Elapsed: 00:00:00
  No. of threads or processors used:  6
  Search cpu time:  201.95u 1.12s 203.07t  Elapsed: 00:00:41
  Total cpu time:  201.96u 1.17s 203.13t  Elapsed: 00:00:41
  Start:  Thu Jan 17 17:07:58 2002   End:  Thu Jan 17 17:08:39 2002


Annotated Domains Database:   March 14, 2000 

Release Date:  March 14, 2000