BLASTP 2.2.2 [Dec-14-2001]


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.

Query= TM0237.11
         (176 letters)

Database: ara_mips 
           26,719 sequences; 11,318,596 total letters

Searching..................................................done

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

At5g59180 RNA polymerase II                                           334  2e-92
At4g14660 RNA polymerase II fifth largest subunit like protein         76  1e-14
At3g22900 unknown protein                                              75  1e-14
At4g14520 unknown protein                                              48  2e-06
At1g06790 RNA polymerase, putative                                     44  3e-05
At5g60750 unknown protein                                              28  2.5
At5g39500 Sec7/gnom -like protein                                      26  9.6
At1g51990                                                              26  9.6

>At5g59180 RNA polymerase II
          Length = 176

 Score =  334 bits (856), Expect = 2e-92
 Identities = 159/175 (90%), Positives = 170/175 (96%)

Query: 1   MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
           MFFHIVLERNMQLHPR+FGRNL++NLV+KLMKDVEGTCSGRHGFVVA+TGI+ +GKGLIR
Sbjct: 1   MFFHIVLERNMQLHPRFFGRNLKENLVSKLMKDVEGTCSGRHGFVVAITGIDTIGKGLIR 60

Query: 61  DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 120
           DGTGFVTFPVKYQCVVFRPFKGEILEAVVT+VNKMGFFAEAGPVQIFVS HLIPDDMEFQ
Sbjct: 61  DGTGFVTFPVKYQCVVFRPFKGEILEAVVTLVNKMGFFAEAGPVQIFVSKHLIPDDMEFQ 120

Query: 121 SGDMPNYTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVINDPVA 175
           +GDMPNYTTSDGSVKIQK+ EVRLKIIGTRVDAT IFC+GTIKDDFLGVINDP A
Sbjct: 121 AGDMPNYTTSDGSVKIQKECEVRLKIIGTRVDATAIFCVGTIKDDFLGVINDPAA 175


>At4g14660 RNA polymerase II fifth largest subunit like protein
          Length = 161

 Score = 75.9 bits (185), Expect = 1e-14
 Identities = 43/132 (32%), Positives = 75/132 (56%), Gaps = 3/132 (2%)

Query: 43  GFVVAVTGIENVGKGLIRDGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAG 102
           G+ VAVT ++ +G+G IR+ TG V FPV +  + F+ FKGEI+  VV  V K G F   G
Sbjct: 30  GYYVAVTTLDKIGEGKIREHTGEVLFPVMFSGMTFKIFKGEIIHGVVHKVLKHGVFMRCG 89

Query: 103 PVQIFVSNHLIPDDMEFQSGDMPNYTTSDGSVKIQKDSEVRLKIIGTR--VDATEIFCIG 160
           P++    ++    D ++  G+ P +     S +IQ ++ VR+ +IG +      E   + 
Sbjct: 90  PIENVYLSYTKMPDYKYIPGENPIFMNEKTS-RIQVETTVRVVVIGIKWMEVEREFQALA 148

Query: 161 TIKDDFLGVIND 172
           +++ D+LG +++
Sbjct: 149 SLEGDYLGPLSE 160


>At3g22900 unknown protein
          Length = 174

 Score = 75.5 bits (184), Expect = 1e-14
 Identities = 43/128 (33%), Positives = 71/128 (54%), Gaps = 3/128 (2%)

Query: 43  GFVVAVTGIENVGKGLIRDGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAG 102
           G+++  T +EN+G+G I++ TG + FPV +  + F+ FKGEI+  VV  V+K G F ++G
Sbjct: 46  GYLITPTILENIGEGKIKEQTGEIQFPVVFNGICFKMFKGEIVHGVVHKVHKTGVFLKSG 105

Query: 103 PVQIFVSNHLIPDDMEFQSGDMPNYTTSDGSVKIQKDSEVRLKIIGT--RVDATEIFCIG 160
           P +I   +H+     EF  G+ P +     S +IQ  + VR  ++ T  R    +   + 
Sbjct: 106 PYEIIYLSHMKMPGYEFIPGENPFFMNQYMS-RIQIGARVRFVVLDTEWREAEKDFMALA 164

Query: 161 TIKDDFLG 168
           +I  D LG
Sbjct: 165 SIDGDNLG 172


>At4g14520 unknown protein
          Length = 200

 Score = 48.1 bits (113), Expect = 2e-06
 Identities = 29/115 (25%), Positives = 59/115 (51%), Gaps = 11/115 (9%)

Query: 1   MFFHIVLERNMQLHPRYF-GRNLRDNLVAKLMKDV--EGTCSGRHGFVVAVTGIENVGKG 57
           MF  + + R++ +  ++  G++    ++ +L++D+  E  C   HGF + +T ++++G  
Sbjct: 1   MFSEVEMARDVAICAKHLNGQSPHQPILCRLLQDLIHEKACR-EHGFYLGITALKSIGNN 59

Query: 58  LIRD-------GTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQ 105
              +           +TFPV + C  F P +G+IL+  V  V   G F  +GP++
Sbjct: 60  KNNNIDNENNHQAKILTFPVSFTCRTFLPARGDILQGTVKKVLWNGAFIRSGPLR 114


>At1g06790 RNA polymerase, putative
          Length = 204

 Score = 44.3 bits (103), Expect = 3e-05
 Identities = 26/87 (29%), Positives = 42/87 (47%)

Query: 1  MFFHIVLERNMQLHPRYFGRNLRDNLVAKLMKDVEGTCSGRHGFVVAVTGIENVGKGLIR 60
          MF+   LE ++++ P      L D + + L            G  V++  I++V  G + 
Sbjct: 1  MFYLSELEHSLRVPPHLLNLPLEDAIKSVLQNVFLDKVLADLGLCVSIYDIKSVEGGFVL 60

Query: 61 DGTGFVTFPVKYQCVVFRPFKGEILEA 87
           G G  T+ V  + VVFRPF GE++ A
Sbjct: 61 PGDGAATYKVGLRIVVFRPFVGEVIAA 87


>At5g60750 unknown protein
          Length = 347

 Score = 28.1 bits (61), Expect = 2.5
 Identities = 13/40 (32%), Positives = 20/40 (49%)

Query: 111 HLIPDDMEFQSGDMPNYTTSDGSVKIQKDSEVRLKIIGTR 150
           H +P+++     D P    +D     QK ++  LK IGTR
Sbjct: 73  HFVPEELVKPDQDSPCTDKTDWKATFQKAADAVLKAIGTR 112


>At5g39500 Sec7/gnom -like protein
          Length = 1443

 Score = 26.2 bits (56), Expect = 9.6
 Identities = 16/52 (30%), Positives = 24/52 (45%), Gaps = 6/52 (11%)

Query: 86  EAVVTMVNKMGFFAEAGPVQIFV------SNHLIPDDMEFQSGDMPNYTTSD 131
           EAV  + NK G +  AG   I          H++PD +   + D P  +TS+
Sbjct: 874 EAVFLIANKYGDYISAGWKNILECVLSLNKLHILPDHIASDAADDPELSTSN 925


>At1g51990 
          Length = 363

 Score = 26.2 bits (56), Expect = 9.6
 Identities = 17/41 (41%), Positives = 21/41 (50%), Gaps = 7/41 (17%)

Query: 29  KLMKDVEGTCSGRHGFVVAVTGIENVGKGLIRDGTGFVTFP 69
           KL+KD EG  S  +G       +  VGK LI+D  GF   P
Sbjct: 90  KLVKDEEGRESRAYG-------LGKVGKKLIKDEDGFSIAP 123


  Database: ara_mips
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 2,978,382
  Number of sequences in database:  6832
  
  Database: /data/blast2/ara_mips_chr2
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 1,737,135
  Number of sequences in database:  4184
  
  Database: /data/blast2/ara_mips_chr3
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 2,236,886
  Number of sequences in database:  5377
  
  Database: /data/blast2/ara_mips_chr4
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 1,748,816
  Number of sequences in database:  4030
  
  Database: /data/blast2/ara_mips_chr5
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 2,569,679
  Number of sequences in database:  6098
  
  Database: /data/blast2/ara_mips_chl
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 25,951
  Number of sequences in database:  85
  
  Database: /data/blast2/ara_mips_mit
    Posted date:  Jul 15, 2004 10:29 AM
  Number of letters in database: 21,747
  Number of sequences in database:  113
  
Lambda     K      H
   0.325    0.144    0.428 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,944,452
Number of Sequences: 26719
Number of extensions: 156865
Number of successful extensions: 379
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 373
Number of HSP's gapped (non-prelim): 8
length of query: 176
length of database: 11,318,596
effective HSP length: 93
effective length of query: 83
effective length of database: 8,833,729
effective search space: 733199507
effective search space used: 733199507
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (26.2 bits)