BLAST query on Arabidopsis sequences

Query performed by the Arabidopsis thaliana Database; for full BLAST options and parameters, refer to the NCBI BLAST Documentation

Links to GenBank, EMBL, PIR, and SwissProt are shown in bold type; links to locations within this document are in normal type.

Your comments and suggestions are requested: Send a Message to AtDB

BLASTP 2.0a19MP-WashU [05-Feb-1998] [Build decunix3.2 01:53:21 05-Feb-1998]

References:

Altschul, Stephen F., Gish, Warren, Miller, Webb, Myers, Eugene W., and David J. Lipman (1990). Basic local alignment search tool. J. Mol. Biol. 215:403-410. [PubMed]

Gish, Warren, and David J. States (1993). Identification of protein coding regions by database similarity search. Nature Genetics 3:266-72. [PubMed]

Gish, Warren (1994) unpublished. BLAST2 Documentation

>121200 (Length: 144)

Query Sequence: >121200 (Length: 144)

Database: Non-Redundant Arabidopsis Protein Data Set; 4705 sequences; 1,706,765 total letters.

                                                                     Smallest
                                                                       Sum
                                                              High  Probability
Sequences producing High-scoring Segment Pairs:              Score  P(N)      N

 GenPept|1402876      gi|1402876 |gnl|PID|e248473 (X98130) p...   65  0.63      1
 GenPept|2052379      gi|2052379  (U66343) calreticulin [Ara...   60  0.93      1
 GenPept|1009712      gi|1009712  (U27698) calreticulin [Ara...   57  0.996     1
 GenPept|2213628      gi|2213628  (AC000103) F21J9.20 [Arabi...   57  0.998     1
   Swiss|ATH6_ARATH   SW:ATH6_ARATH P46668 arabidopsis thal...   55  0.999     1
     PIR|S28565        PIR:S28565 hypothetical protein (Athb...   33  0.9999    1



GenPept|1402876 gi|1402876 |gnl|PID|e248473 (X98130) putative phosphate	[GenPept]
            permease [Arabidopsis thaliana]; gi|1495255|gnl|PID|e242836
            (X97484) orf01 [Arabidopsis thaliana]
            Length = 587

 Score = 65 (22.9 bits), Expect = 1.0, P = 0.63
 Identities = 29/86 (33%), Positives = 43/86 (50%)

Query:    28 FYNKLFKDSEDISEAFVKAGTGSGIAMKRQALVFGAILQEFVANLNDPTALTLKI-KGLC 86
             FY      + D++ A +    GSG    RQA++  A+L EF   L   T +T  + KG+ 
Sbjct:   166 FYMAWNIGANDVANA-MGTSVGSGALTIRQAVMTAAVL-EFSGALLMGTHVTSTMQKGIL 223

Query:    87 ATHKTRGITNMELFAFALADLVAYMGT 113
               +  +G  +M LFA  L+ L A  GT
Sbjct:   224 MANVFQG-KDMLLFAGLLSSLAA-AGT 248


GenPept|2052379 gi|2052379  (U66343) calreticulin [Arabidopsis thaliana]	[GenPept]
            Length = 425

 Score = 60 (21.1 bits), Expect = 2.6, P = 0.93
 Identities = 13/33 (39%), Positives = 16/33 (48%)

Query:     6 IKNVQDTWGKLYDQWDAVHASKFYNKLFKDSED 38
             I NV+   G LY  WD + A K  +   K  ED
Sbjct:   189 IDNVEKQTGSLYSDWDLLPAKKIKDPSAKKPED 221


GenPept|1009712 gi|1009712  (U27698) calreticulin [Arabidopsis thaliana]	[GenPept]
            Length = 409

 Score = 57 (20.1 bits), Expect = 5.6, P = 1.0
 Identities = 13/36 (36%), Positives = 16/36 (44%)

Query:     6 IKNVQDTWGKLYDQWDAVHASKFYNKLFKDSEDISE 41
             I NV+   G LY  WD +   K  +   K  ED  E
Sbjct:   174 IDNVEKQTGSLYSDWDLLPPKKIKDPSAKKPEDWDE 209


GenPept|2213628 gi|2213628  (AC000103) F21J9.20 [Arabidopsis thaliana]	[GenPept]
            Length = 436

 Score = 57 (20.1 bits), Expect = 6.1, P = 1.0
 Identities = 20/69 (28%), Positives = 35/69 (50%)

Query:    53 AMKRQALVFGAILQEFVANLNDPTALTLKIKGLCATHKTRGITNMELFAFALADLVAYMG 112
             A  R+A+ +  +L +  AN      L + I   C +HK    T++ +F    A+    +G
Sbjct:   126 AKSREAVTWPVLLIQ--ANFFSCGGLVITI---CVSHKITDATSLAMFIRGWAESSRGLG 180

Query:   113 TTI--SFTAAQ 121
              T+  SFTA++
Sbjct:   181 ITLIPSFTASE 191


SWISS|ATH6_ARATH|P46668 arabidopsis thaliana (mouse-ear	[SwissProt / Entrez]
            cress). homeobox-leucine zipper protein athb-6 (hd-zip protein
            athb-6). 2/96; PIR:S47136 homeotic protein Athb-6 - Arabidopsis
            Length = 311

 Score = 55 (19.4 bits), Expect = 6.8, P = 1.0
 Identities = 32/142 (22%), Positives = 64/142 (45%)

Query:     7 KNVQDTWGKLYDQWDAVHASKFYNKLFKDSEDISEAFVKAGT---GSGIAMKRQALVFGA 63
             K ++  +G L  Q+D++  +  ++ L +D+E + +   K  T   G G   + +      
Sbjct:   117 KQLEKDYGVLKTQYDSLRHN--FDSLRRDNESLLQEISKLKTKLNGGGGEEEEEENNAAV 174

Query:    64 ILQEFVANLNDPTALTLKIKGLCAT-----HKTRGITNMELFAFALADLVAYMGTTISFT 118
               +  ++   +  +L  KI    ++       + G+ N   F   L DL+       SF 
Sbjct:   175 TTESDISVKEEEVSLPEKITEAPSSPPQFLEHSDGL-NYRSFT-DLRDLLPLKAAASSFA 232

Query:   119 AAQKASWTAVNDVILHQMSSYFATVA 144
             AA  +S ++ +  +L++ SS   TVA
Sbjct:   233 AAAGSSDSSDSSALLNEESSSNVTVA 258


PIR|S28565 hypothetical protein (Athb-2 5' region) -	[PIR / Entrez]
            Arabidopsis thaliana; gi|16331 (X68146) orf [Arabidopsis thaliana];
            gi|16179 (X68145) orf [Arabidopsis thaliana]
            Length = 45

 Score = 33 (11.6 bits), Expect = 8.9, P = 1.0
 Identities = 8/31 (25%), Positives = 14/31 (45%)

Query:   110 YMGTTISFTAAQKASWTAVNDVILHQMSSYF 140
             Y+  + SFT +   S      + L + S +F
Sbjct:    13 YINLSSSFTFSSSISQKKSRQLYLQKQSFFF 43


Parameters:
  hspsepsmax=144
  hspsepqmax=144
  B=100
  V=100
  filter=seg

  ctxfactor=1.00
  E=10

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.131   0.378    same    same    same
               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
   +0      0      144       144       10.  56 3  11 22  0.21    31
                                                    30  0.24    33


Statistics:

  Database:  /share/fasolt/gcg5/gcgdata/gcgblast//ArabidopsisP
    Title:  ArabidopsisP
    Release date:  unknown
    Posted date:  4:33 AM PST Apr 4, 1998
    Format:  BLAST
  # of letters in database:  1,706,765
  # of sequences in database:  4705
  # of database sequences satisfying E:  6
  No. of states in DFA:  545 (107 KB)
  Total size of DFA:  179 KB (192 KB)
  Time to generate neighborhood:  0.03u 0.00s 0.03t  Elapsed: 00:00:00
  No. of threads or processors used:  2
  Search cpu time:  1.73u 0.28s 2.01t  Elapsed: 00:00:01
  Total cpu time:  1.91u 0.40s 2.31t  Elapsed: 00:00:02
  Start:  Mon Apr  6 14:24:07 1998   End:  Mon Apr  6 14:24:09 1998