BLASTP 2.2.21 [Jun-14-2009]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= gi|3298468|dbj|BAA31520.1| SAMIPF
         (472 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           8,994,603 sequences; 3,078,807,967 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

pdb|1JLX|A Chain A, Agglutinin In Complex With T-Disaccharide >g...   640   0.0  
gb|AAQ03084.1|AF401479_1 agglutinin [Amaranthus caudatus]             630   e-179
gb|AAL05954.1| agglutinin [Amaranthus caudatus]                       627   e-178
gb|AAD33922.1|AF143954_1 agglutinin [Amaranthus hypochondriacus]...   625   e-177
gb|AAM09540.1|AF491291_1 seed protein AmA1 [Amaranthus hypochond...   624   e-177
ref|XP_002264858.1| PREDICTED: hypothetical protein [Vitis vinif...   245   6e-63
ref|XP_002264911.1| PREDICTED: hypothetical protein [Vitis vinif...   244   1e-62
emb|CAN71829.1| hypothetical protein [Vitis vinifera]                 239   5e-61
ref|XP_002264098.1| PREDICTED: hypothetical protein [Vitis vinif...   237   2e-60
ref|XP_002264775.1| PREDICTED: hypothetical protein [Vitis vinif...   231   9e-59

>pdb|1JLX|A Chain A, Agglutinin In Complex With T-Disaccharide
 pdb|1JLX|B Chain B, Agglutinin In Complex With T-Disaccharide
 pdb|1JLY|A Chain A, Crystal Structure Of Amaranthus Caudatus Agglutinin
 pdb|1JLY|B Chain B, Crystal Structure Of Amaranthus Caudatus Agglutinin
          Length = 303

 Score =  640 bits (1652), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 303/303 (100%), Positives = 303/303 (100%)

Query: 170 AGLPVIMCLKSNNHQKYLRYQSDNIQQYGLLQFSADKILDPLAQFEVEPSKTYDGLVHIK 229
           AGLPVIMCLKSNNHQKYLRYQSDNIQQYGLLQFSADKILDPLAQFEVEPSKTYDGLVHIK
Sbjct: 1   AGLPVIMCLKSNNHQKYLRYQSDNIQQYGLLQFSADKILDPLAQFEVEPSKTYDGLVHIK 60

Query: 230 SRYTNKYLVRWSPNHYWITASANEPDENKSNWACTLFKPLYVEEGNMKKVRLLHVQLGHY 289
           SRYTNKYLVRWSPNHYWITASANEPDENKSNWACTLFKPLYVEEGNMKKVRLLHVQLGHY
Sbjct: 61  SRYTNKYLVRWSPNHYWITASANEPDENKSNWACTLFKPLYVEEGNMKKVRLLHVQLGHY 120

Query: 290 TQNYTVGGSFVSYLFAESSQIDTGSKDVFHVIDWKSIFQFPKGYVTFKGNNGKYLGVITI 349
           TQNYTVGGSFVSYLFAESSQIDTGSKDVFHVIDWKSIFQFPKGYVTFKGNNGKYLGVITI
Sbjct: 121 TQNYTVGGSFVSYLFAESSQIDTGSKDVFHVIDWKSIFQFPKGYVTFKGNNGKYLGVITI 180

Query: 350 NQLPCLQFGYDNLNDPKVAHQMFVTSNGTICIKSNYMNKFWRLSTDDWILVDGNDPRETN 409
           NQLPCLQFGYDNLNDPKVAHQMFVTSNGTICIKSNYMNKFWRLSTDDWILVDGNDPRETN
Sbjct: 181 NQLPCLQFGYDNLNDPKVAHQMFVTSNGTICIKSNYMNKFWRLSTDDWILVDGNDPRETN 240

Query: 410 EAAALFRSDVHDFNVISLLNMQKTWFIKRFTSGKPGFINCMNAATQNVDETAILEIIELG 469
           EAAALFRSDVHDFNVISLLNMQKTWFIKRFTSGKPGFINCMNAATQNVDETAILEIIELG
Sbjct: 241 EAAALFRSDVHDFNVISLLNMQKTWFIKRFTSGKPGFINCMNAATQNVDETAILEIIELG 300

Query: 470 QNN 472
           QNN
Sbjct: 301 QNN 303


BLASTP 2.2.21 [Jun-14-2009]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= gi|4959044|gb|AAD34209.1|AF069992_1 LIM domain interacting RING
finger protein
         (600 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           8,994,603 sequences; 3,078,807,967 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

sp|Q9WTV7.1|RNF12_MOUSE RecName: Full=E3 ubiquitin-protein ligas...   684   0.0  
ref|NP_035406.3| ring finger protein, LIM domain interacting [Mu...   676   0.0  
dbj|BAB28712.1| unnamed protein product [Mus musculus]                674   0.0  
dbj|BAC26379.1| unnamed protein product [Mus musculus]                672   0.0  
ref|NP_001020063.1| ring finger protein, LIM domain interacting ...   620   e-175
ref|NP_057204.2| ring finger protein, LIM domain interacting [Ho...   606   e-171
ref|XP_001141975.1| PREDICTED: ring finger protein 12 isoform 1 ...   605   e-171
ref|XP_001096367.1| PREDICTED: similar to ring finger protein 12...   605   e-171
dbj|BAA91632.1| unnamed protein product [Homo sapiens]                604   e-170
ref|XP_001505028.1| PREDICTED: similar to E3 ubiquitin-protein l...   602   e-170

>sp|Q9WTV7.1|RNF12_MOUSE RecName: Full=E3 ubiquitin-protein ligase RNF12; AltName: Full=RING
           finger protein 12; AltName: Full=LIM domain-interacting
           RING finger protein; AltName: Full=RING finger LIM
           domain-binding protein; Short=R-LIM
 gb|AAD34209.1|AF069992_1 LIM domain interacting RING finger protein [Mus musculus]
          Length = 600

 Score =  684 bits (1765), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/414 (85%), Positives = 353/414 (85%)

Query: 1   MENSDSNDKGSDQSAAQRRSQMDRLDREEAFYQFVNNLSEEDYRLMRDNNLLGTPGESTE 60
           MENSDSNDKGSDQSAAQRRSQMDRLDREEAFYQFVNNLSEEDYRLMRDNNLLGTPGESTE
Sbjct: 1   MENSDSNDKGSDQSAAQRRSQMDRLDREEAFYQFVNNLSEEDYRLMRDNNLLGTPGESTE 60

Query: 61  EELLRRLQQIKEGPPPQSPDENRAGESSDDVTNSDSIIDWLNSVRQTGNTTRSRQRGNQS 120
           EELLRRLQQIKEGPPPQSPDENRAGESSDDVTNSDSIIDWLNSVRQTGNTTRSRQRGNQS
Sbjct: 61  EELLRRLQQIKEGPPPQSPDENRAGESSDDVTNSDSIIDWLNSVRQTGNTTRSRQRGNQS 120

Query: 121 WRAVSRTNPNSGDFRFSLEINVNRNNGSQTSENESEPSTRRLSVENMESSSQRQMXXXXX 180
           WRAVSRTNPNSGDFRFSLEINVNRNNGSQTSENESEPSTRRLSVENMESSSQRQM     
Sbjct: 121 WRAVSRTNPNSGDFRFSLEINVNRNNGSQTSENESEPSTRRLSVENMESSSQRQMENSAS 180

Query: 181 XXXXXXXXXXXXXXTEAVTEVXXXXXXXXXXXXXXXXXXXXXXXERSMSPLQPTSEIPRR 240
                         TEAVTEV                       ERSMSPLQPTSEIPRR
Sbjct: 181 ESASARPSRAERNSTEAVTEVPTTRAQRRARSRSPEHRRTRARAERSMSPLQPTSEIPRR 240

Query: 241 APTLEQSSENEPEGSSRTRHHVTLRQQISGPELLGRGLFAASGSRNPXXXXXXXXXXXXX 300
           APTLEQSSENEPEGSSRTRHHVTLRQQISGPELLGRGLFAASGSRNP             
Sbjct: 241 APTLEQSSENEPEGSSRTRHHVTLRQQISGPELLGRGLFAASGSRNPSQGTSSSDTGSNS 300

Query: 301 XXXXXXQRPPTIVLDLQVRRVRPGEYRQRDSIASRTRSRSQAPNNTVTYESERGGFRRTF 360
                 QRPPTIVLDLQVRRVRPGEYRQRDSIASRTRSRSQAPNNTVTYESERGGFRRTF
Sbjct: 301 ESSGSGQRPPTIVLDLQVRRVRPGEYRQRDSIASRTRSRSQAPNNTVTYESERGGFRRTF 360

Query: 361 SRSERAGVRTYVSTIRIPIRRILNTGLSETTSVAIQTMLRQIMTGFGELSYFMY 414
           SRSERAGVRTYVSTIRIPIRRILNTGLSETTSVAIQTMLRQIMTGFGELSYFMY
Sbjct: 361 SRSERAGVRTYVSTIRIPIRRILNTGLSETTSVAIQTMLRQIMTGFGELSYFMY 414



 Score =  258 bits (658), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 115/115 (100%), Positives = 115/115 (100%)

Query: 486 KDGRHRAPVTFDESGSLPFFSLAQFFLLNEDDEDQPRGLTKEQIDNLAMRSFGENDALKT 545
           KDGRHRAPVTFDESGSLPFFSLAQFFLLNEDDEDQPRGLTKEQIDNLAMRSFGENDALKT
Sbjct: 486 KDGRHRAPVTFDESGSLPFFSLAQFFLLNEDDEDQPRGLTKEQIDNLAMRSFGENDALKT 545

Query: 546 CSVCITEYTEGDKLRKLPCSHEFHVHCIDRWLSENSTCPICRRAVLSSGNRESVV 600
           CSVCITEYTEGDKLRKLPCSHEFHVHCIDRWLSENSTCPICRRAVLSSGNRESVV
Sbjct: 546 CSVCITEYTEGDKLRKLPCSHEFHVHCIDRWLSENSTCPICRRAVLSSGNRESVV 600


BLASTP 2.2.21 [Jun-14-2009]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= gi|671626|emb|CAA85685.1| rubisco large subunit
         (473 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           8,994,603 sequences; 3,078,807,967 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

emb|CAA85685.1| rubisco large subunit [Rosmarinus officinalis]        947   0.0  
emb|CAA85698.1| rubisco large subunit [Salvia sclarea] >gi|14192...   942   0.0  
emb|CAA85688.1| rubisco large subunit [Salvia bucharica] >gi|141...   942   0.0  
emb|CAA85670.1| rubisco large subunit [Monarda menthaefolia]          941   0.0  
emb|CAA85667.1| rubisco large subunit [Mentha suaveolens]             941   0.0  
emb|CAA85676.1| rubisco large subunit [Origanum laevigatum] >gi|...   941   0.0  
emb|CAA85684.1| rubisco large subunit [Rosmarinus officinalis]        940   0.0  
emb|CAA85687.1| rubisco large subunit [Salvia argentea]               939   0.0  
emb|CAA85686.1| rubisco large subunit [Salvia aethiopis]              939   0.0  
emb|CAA85718.1| rubisco large subunit [Thymus alsinoides]             939   0.0  

>emb|CAA85685.1| rubisco large subunit [Rosmarinus officinalis]
          Length = 473

 Score =  947 bits (2449), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 458/473 (96%), Positives = 458/473 (96%)

Query: 1   MSPQTETKASVGFKAGVKEYKLTYYTPEYETKDTDILAAFRVTPQXXXXXXXXXXXXXXX 60
           MSPQTETKASVGFKAGVKEYKLTYYTPEYETKDTDILAAFRVTPQ               
Sbjct: 1   MSPQTETKASVGFKAGVKEYKLTYYTPEYETKDTDILAAFRVTPQPGVPPEEAGAAVAAE 60

Query: 61  SSTGTWTTVWTDGLTSLDRYKGRCYHIEPVPGEKDQCICYVAYPLDLFEEGSVTNMFTSI 120
           SSTGTWTTVWTDGLTSLDRYKGRCYHIEPVPGEKDQCICYVAYPLDLFEEGSVTNMFTSI
Sbjct: 61  SSTGTWTTVWTDGLTSLDRYKGRCYHIEPVPGEKDQCICYVAYPLDLFEEGSVTNMFTSI 120

Query: 121 VGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGL 180
           VGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGL
Sbjct: 121 VGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGL 180

Query: 181 SAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEAIYKAQAETGEIKGHYL 240
           SAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEAIYKAQAETGEIKGHYL
Sbjct: 181 SAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEAIYKAQAETGEIKGHYL 240

Query: 241 NATAGTCEEMIKRAIFARELGVPIVMHDYLTGGFTANTSLAHYCRDNGLLLHIHRAMHAV 300
           NATAGTCEEMIKRAIFARELGVPIVMHDYLTGGFTANTSLAHYCRDNGLLLHIHRAMHAV
Sbjct: 241 NATAGTCEEMIKRAIFARELGVPIVMHDYLTGGFTANTSLAHYCRDNGLLLHIHRAMHAV 300

Query: 301 IDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDFIEKDRSR 360
           IDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDFIEKDRSR
Sbjct: 301 IDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDFIEKDRSR 360

Query: 361 GIYFTQDWVSLPGVIPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVAN 420
           GIYFTQDWVSLPGVIPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVAN
Sbjct: 361 GIYFTQDWVSLPGVIPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVAN 420

Query: 421 RVAVEACVKARNEGRDLAAEGNAIIREACKWSPELAAACEVWKEIKFEFPAMD 473
           RVAVEACVKARNEGRDLAAEGNAIIREACKWSPELAAACEVWKEIKFEFPAMD
Sbjct: 421 RVAVEACVKARNEGRDLAAEGNAIIREACKWSPELAAACEVWKEIKFEFPAMD 473


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF excluding environmental samples
  from WGS projects
    Posted date:  Jun 4, 2009  5:40 PM
  Number of letters in database: 3,078,807,967
  Number of sequences in database:  8,994,603
  
Lambda     K      H
   0.325    0.138    0.426 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 8994603
Number of Hits to DB: 8,456,431,703
Number of extensions: 350268212
Number of successful extensions: 843324
Number of sequences better than 1.0e-05: 30452
Number of HSP's gapped: 835403
Number of HSP's successfully gapped: 30847
Length of database: 3,078,807,967
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 133 (55.8 bits)
