GeneModel BLAST Result against arabidopsis

BLASTP 2.2.12 [Aug-07-2005]


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= BGIBMGA000629-TA|BGIBMGA000629-PA|IPR011129|Cold shock protein,
IPR002059|Cold-shock protein, DNA-binding, IPR008994|Nucleic
acid-binding, OB-fold
         (776 letters)

Database: arabidopsis 
           28,952 sequences; 12,070,560 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At4g36020.1 68417.m05128 cold-shock DNA-binding family protein c...    31   2.9  
At1g75850.1 68414.m08810 vacuolar protein sorting-associated pro...    30   5.1  
At1g55540.1 68414.m06356 proline-rich family protein contains pr...    30   5.1  
At2g17870.1 68415.m02070 cold-shock DNA-binding family protein c...    30   6.7  
At1g41830.1 68414.m04829 multi-copper oxidase type I family prot...    30   6.7  

>At4g36020.1 68417.m05128 cold-shock DNA-binding family protein
           contains Pfam domains, PF00313: 'Cold-shock' DNA-binding
           domain and PF00098: Zinc knuckle
          Length = 299

 Score = 31.1 bits (67), Expect = 2.9
 Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 4/59 (6%)

Query: 656 DAIKGVFGFLSVDGEDTRRLFFHMSEVRGNP-SELQSGDTVEFVMLTNPRNGKSSACNV 713
           +A KG +GF++ D + +  LF H S +       L  GD VEF  +T   +GK+ A NV
Sbjct: 19  NASKG-YGFITPD-DGSVELFVHQSSIVSEGYRSLTVGDAVEFA-ITQGSDGKTKAVNV 74



 Score = 31.1 bits (67), Expect = 2.9
 Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 328 EGFGFIRCVEREQTMFFHFAEVLRLG-QDLTVGDEVEFTV 366
           +G+GFI   +    +F H + ++  G + LTVGD VEF +
Sbjct: 22  KGYGFITPDDGSVELFVHQSSIVSEGYRSLTVGDAVEFAI 61


>At1g75850.1 68414.m08810 vacuolar protein sorting-associated
           protein 35 family protein / VPS35 family protein similar
           to vacuolar protein sorting 35 [Mus musculus]
           GI:11875394; contains Pfam profile PF03635: Vacuolar
           protein sorting-associated protein 35
          Length = 838

 Score = 30.3 bits (65), Expect = 5.1
 Identities = 24/61 (39%), Positives = 32/61 (52%), Gaps = 6/61 (9%)

Query: 353 GQDLTVGDEVEFTVDHLSTFSNMNTRQSAIRIKHLSPGTVQFETLIERG-VRGVVTKEAQ 411
           G   TV D VEF    L  F+ MN  +  +RI+H  PGTV+ +   ER  +R +V K   
Sbjct: 196 GDANTVMDAVEFV---LQNFTEMN--KLWVRIQHQGPGTVREKQEKERNELRDLVGKNLH 250

Query: 412 V 412
           V
Sbjct: 251 V 251


>At1g55540.1 68414.m06356 proline-rich family protein contains
           proline rich extensin domain, INTERPRO:IPR002965
          Length = 915

 Score = 30.3 bits (65), Expect = 5.1
 Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 736 TASLEESAGPRVIAVRTPRGPDGSRGFRPRRPIAGQIL 773
           T+  EESA  ++   RT   P GS  F P+RP+A  +L
Sbjct: 218 TSYAEESAPSQIKDTRTVSQPGGS-SFLPKRPVASTVL 254


>At2g17870.1 68415.m02070 cold-shock DNA-binding family protein
           contains Pfam domains, PF00313: 'Cold-shock' DNA-binding
           domain and PF00098: Zinc knuckle
          Length = 301

 Score = 29.9 bits (64), Expect = 6.7
 Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 510 GFGFIETSDHTKEVFFHFSNLEGSP-ENLELGIEVEYSLGRLNGSGGGCASAE 561
           G+GFI   D  +E+F H S++      +L LG  VEY +    GS G   + E
Sbjct: 23  GYGFITPDDGGEELFVHQSSIVSDGFRSLTLGESVEYEIAL--GSDGKTKAIE 73


>At1g41830.1 68414.m04829 multi-copper oxidase type I family protein
           similar to pollen-specific BP10 protein
           [SP|Q00624][Brassica napus]; contains Pfam profile:
           PF00394 Multicopper oxidase
          Length = 542

 Score = 29.9 bits (64), Expect = 6.7
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 6/65 (9%)

Query: 265 VEVPFGDKDQCGEFTLRHGDWVQFQVATDRRDQLKRATNISLLDESFYVSGERREQGLVC 324
           + VPF D    G++T+  GDW +F   TD + +L R   +   D    ++G  R  G   
Sbjct: 151 IPVPFADP--AGDYTVLIGDWYKFN-HTDLKSRLDRGRKLPSPD-GILING--RSNGATL 204

Query: 325 SLREG 329
           ++ +G
Sbjct: 205 NVEQG 209


  Database: arabidopsis
    Posted date:  Oct 3, 2007  3:31 PM
  Number of letters in database: 12,070,560
  Number of sequences in database:  28,952
  
Lambda     K      H
   0.319    0.136    0.398 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 18,034,183
Number of Sequences: 28952
Number of extensions: 762925
Number of successful extensions: 1555
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1554
Number of HSP's gapped (non-prelim): 7
length of query: 776
length of database: 12,070,560
effective HSP length: 87
effective length of query: 689
effective length of database: 9,551,736
effective search space: 6581146104
effective search space used: 6581146104
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 63 (29.5 bits)