BLASTP 2.2.26 [Sep-21-2011]
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= 039831
(545 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RZO|B Chain B, Agglutinin From Ricinus Communis With Galactoaza
pdb|1RZO|D Chain D, Agglutinin From Ricinus Communis With Galactoaza
Length = 262
Score = 32.7 bits (73), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 226 WQFF----ILHYGSMPLETLTQGKFG--LTVERQIFSVAEGFIPYNSEETAEHYLKQLIH 279
WQ + I++ S + T G G LTV+ I++V++G++P N+ + + L
Sbjct: 90 WQIWDNRTIINPRSGLVLAATSGNSGTKLTVQTNIYAVSQGWLPTNNTQPFVTTIVGLYG 149
Query: 280 RGFIQATGFVWMHDVDEE 297
+G VW+ D E
Sbjct: 150 MCLQANSGKVWLEDCTSE 167
>pdb|2AAI|B Chain B, Crystallographic Refinement Of Ricin To 2.5 Angstroms
pdb|3RTI|B Chain B, Crystal Structure Of Ricin Bound With Formycin
Monophosphate
pdb|3RTJ|B Chain B, Crystal Structure Of Ricin Bound With Dinucleotide Apg
Length = 262
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 226 WQFF----ILHYGSMPLETLTQGKFG--LTVERQIFSVAEGFIPYNSEETAEHYLKQLIH 279
WQ + I++ S + T G G LTV+ I++V++G++P N+ + + L
Sbjct: 90 WQIWDNGTIINPRSSLVLAATSGNSGTTLTVQTNIYAVSQGWLPTNNTQPFVTTIVGLYG 149
Query: 280 RGFIQATGFVWMHDVDEE 297
+G VW+ D E
Sbjct: 150 LCLQANSGQVWIEDCSSE 167
>pdb|3A4L|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4L|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3AM1|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Anticodon-StemLOOP TRUNCATED TRNA(SEC)
Length = 260
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 154 KKYFIVLDDVFHYSEMWSDVVELLPDDQNGSRVLILVTEPTLLTSLEMENGEKI 207
K Y++++DD +Y+ M D++ + ++ L +L +E GEKI
Sbjct: 71 KNYWVIVDDTNYYNSMRRDLINIAKKYNKNYAIIYLKASLDVLIRRNIERGEKI 124
>pdb|2XGX|A Chain A, Crystal Structure Of Transcription Factor Ntca From
Synechococcus Elongatus (Mercury Derivative)
pdb|2XGX|B Chain B, Crystal Structure Of Transcription Factor Ntca From
Synechococcus Elongatus (Mercury Derivative)
pdb|2XHK|A Chain A, Crystal Structure Of Transcription Factor Ntca From
Synechococcus Elongatus Bound To 2-Oxoglutarate
pdb|2XHK|B Chain B, Crystal Structure Of Transcription Factor Ntca From
Synechococcus Elongatus Bound To 2-Oxoglutarate
pdb|2XKO|A Chain A, Crystal Structure Of The Complex Of Ntca With Its
Transcriptional Co-Activator Pipx
pdb|2XKO|B Chain B, Crystal Structure Of The Complex Of Ntca With Its
Transcriptional Co-Activator Pipx
pdb|2XKP|A Chain A, Ntca From Synechococcus Elongatus: Active And Inactive
pdb|2XKP|B Chain B, Ntca From Synechococcus Elongatus: Active And Inactive
pdb|2XKP|C Chain C, Ntca From Synechococcus Elongatus: Active And Inactive
pdb|2XKP|D Chain D, Ntca From Synechococcus Elongatus: Active And Inactive
pdb|2XKP|E Chain E, Ntca From Synechococcus Elongatus: Active And Inactive
pdb|2XKP|F Chain F, Ntca From Synechococcus Elongatus: Active And Inactive
Length = 222
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 37 IIRLLSEGQPPLDISEFERGREKFFD--------LLIEGPSGLSVV 74
+ R L G+ PL I +FERG+ FF LL++G LS V
Sbjct: 11 MFRELGSGKLPLQIEQFERGKTIFFPGDPAERVYLLVKGAVKLSRV 56
>pdb|3IVB|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Architectures Of Btb-Cul3 Ubiquitin Ligases: Spopmath-
Macroh2asbcpep1
pdb|3IVQ|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVQ|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVV|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Pucsbc1_pep1
Length = 145
Score = 29.3 bits (64), Expect = 5.7, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 133 RVIIGKDYQFKKSILRDYLTNKKYFIVLDD 162
R + GKD+ FKK I RD+L ++ ++ DD
Sbjct: 103 RFVQGKDWGFKKFIRRDFLLDEANGLLPDD 132
>pdb|2CR2|A Chain A, Solution Structure Of N-Terminal Domain Of Speckle-Type
Poz Protein
Length = 159
Score = 29.3 bits (64), Expect = 6.3, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 133 RVIIGKDYQFKKSILRDYLTNKKYFIVLDD 162
R + GKD+ FKK I RD+L ++ ++ DD
Sbjct: 104 RFVQGKDWGFKKFIRRDFLLDEANGLLPDD 133
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,238,544
Number of Sequences: 62578
Number of extensions: 607295
Number of successful extensions: 1211
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1207
Number of HSP's gapped (non-prelim): 7
length of query: 545
length of database: 14,973,337
effective HSP length: 104
effective length of query: 441
effective length of database: 8,465,225
effective search space: 3733164225
effective search space used: 3733164225
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)