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= 006971
(623 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R28|A Chain A, Crystal Structure Of The B-Cell Lymphoma 6 (Bcl6) Btb
Domain To 2.2 Angstrom
pdb|1R28|B Chain B, Crystal Structure Of The B-Cell Lymphoma 6 (Bcl6) Btb
Domain To 2.2 Angstrom
pdb|1R29|A Chain A, Crystal Structure Of The B-cell Lymphoma 6 (bcl6) Btb
Domain To 1.3 Angstrom
pdb|1R2B|A Chain A, Crystal Structure Of The Bcl6 Btb Domain Complexed With A
Smrt Co-Repressor Peptide
pdb|1R2B|B Chain B, Crystal Structure Of The Bcl6 Btb Domain Complexed With A
Smrt Co-Repressor Peptide
pdb|3BIM|A Chain A, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|B Chain B, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|C Chain C, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|D Chain D, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|E Chain E, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|F Chain F, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|G Chain G, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3BIM|H Chain H, Crystal Structure Of The Bcl6 Btb Domain Dimer In Complex
With The Bcor Bbd Corepressor Peptide
pdb|3LBZ|A Chain A, Crystal Structure Of The Bcl6 Btb Domain Complexed With
The Molecule Inhibitor 79-6
pdb|3LBZ|B Chain B, Crystal Structure Of The Bcl6 Btb Domain Complexed With
The Molecule Inhibitor 79-6
Length = 127
Score = 36.6 bits (83), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 37 SQEIPSDVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADLSVIEI-PDVPGGAEAFE 95
S++I +DV + V F HK L++ G + + + +LSVI + P++ E F
Sbjct: 25 SRDILTDVVIVVSREQFRAHKTVLMACSGLFYSIFTDQLKRNLSVINLDPEI--NPEGFN 82
Query: 96 LAAKFCYGINFEINTENVAGLRCVAEYLEM 125
+ F Y + N+ + A YL+M
Sbjct: 83 ILLDFMYTSRLNLREGNIMAVMATAMYLQM 112
>pdb|3GA1|A Chain A, Crystal Structure Of The Human Nac1 Poz Domain
pdb|3GA1|B Chain B, Crystal Structure Of The Human Nac1 Poz Domain
Length = 129
Score = 35.4 bits (80), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 4/90 (4%)
Query: 38 QEIPSDVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADLSVIEIPDVPGGAEAFELA 97
Q + DV+V V G +F H+ L + Y R L + S A V+E+P ++F+
Sbjct: 30 QGLYCDVSVVVKGHAFKAHRAVLAASSSYFRDLFNNSRSA---VVELPAAV-QPQSFQQI 85
Query: 98 AKFCYGINFEINTENVAGLRCVAEYLEMTE 127
FCY +N + L A +L++ E
Sbjct: 86 LSFCYTGRLSMNVGDQDLLMYTAGFLQIQE 115
>pdb|3E4U|A Chain A, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|B Chain B, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|C Chain C, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|D Chain D, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|E Chain E, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
pdb|3E4U|F Chain F, Crystal Structure Of The Wild-Type Human Bcl6 BtbPOZ
DOMAIN
Length = 130
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 37 SQEIPSDVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADLSVIEI-PDVPGGAEAFE 95
S++I +DV + V F HK L++ G + + + +LSVI + P++ E F
Sbjct: 28 SRDILTDVVIVVSREQFRAHKTVLMACSGLFYSIFTDQLKCNLSVINLDPEI--NPEGFC 85
Query: 96 LAAKFCYGINFEINTENVAGLRCVAEYLEM 125
+ F Y + N+ + A YL+M
Sbjct: 86 ILLDFMYTSRLNLREGNIMAVMATAMYLQM 115
>pdb|2IF5|A Chain A, Structure Of The Poz Domain Of Human Lrf, A Master
Regulator Of Oncogenesis
Length = 120
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 40/90 (44%), Gaps = 3/90 (3%)
Query: 37 SQEIPSDVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADL-SVIEIPDVPGGAEAFE 95
+Q + DV + V G F H+ L + Y +KL + + D +V EI V AEA
Sbjct: 21 TQGLLCDVVILVEGREFPTHRSVLAACSQYFKKLFTSGAVVDQQNVYEIDFV--SAEALT 78
Query: 96 LAAKFCYGINFEINTENVAGLRCVAEYLEM 125
F Y ++T NV + A LE+
Sbjct: 79 ALMDFAYTATLTVSTANVGDILSAARLLEI 108
>pdb|2NN2|A Chain A, Crystal Structure Of The Btb Domain From The LrfZBTB7
Transcriptional Regulator
pdb|2NN2|B Chain B, Crystal Structure Of The Btb Domain From The LrfZBTB7
Transcriptional Regulator
Length = 133
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 40/90 (44%), Gaps = 3/90 (3%)
Query: 37 SQEIPSDVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADL-SVIEIPDVPGGAEAFE 95
+Q + DV + V G F H+ L + Y +KL + + D +V EI V AEA
Sbjct: 31 TQGLLCDVVILVEGREFPTHRSVLAACSQYFKKLFTSGAVVDQQNVYEIDFV--SAEALT 88
Query: 96 LAAKFCYGINFEINTENVAGLRCVAEYLEM 125
F Y ++T NV + A LE+
Sbjct: 89 ALMDFAYTATLTVSTANVGDILSAARLLEI 118
>pdb|2Q81|A Chain A, Crystal Structure Of The Miz-1 BtbPOZ DOMAIN
pdb|2Q81|B Chain B, Crystal Structure Of The Miz-1 BtbPOZ DOMAIN
pdb|2Q81|C Chain C, Crystal Structure Of The Miz-1 BtbPOZ DOMAIN
pdb|2Q81|D Chain D, Crystal Structure Of The Miz-1 BtbPOZ DOMAIN
Length = 119
Score = 31.6 bits (70), Expect = 1.4, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 6/85 (7%)
Query: 43 DVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADLSVIEIPDVPGGAEAFELAAKFCY 102
D T V G F HK L + Y + L + D+ ++I + G + E F Y
Sbjct: 29 DCTFVVDGVHFKAHKAVLAACSEYFKMLFV--DQKDVVHLDISNAAGLGQVLE----FMY 82
Query: 103 GINFEINTENVAGLRCVAEYLEMTE 127
++ ENV + VA +L+M +
Sbjct: 83 TAKLSLSPENVDDVLAVATFLQMQD 107
>pdb|3M52|A Chain A, Crystal Structure Of The Btb Domain From The Miz-1ZBTB17
Transcription Regulator
pdb|3M52|B Chain B, Crystal Structure Of The Btb Domain From The Miz-1ZBTB17
Transcription Regulator
Length = 117
Score = 31.6 bits (70), Expect = 1.4, Method: Composition-based stats.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 6/85 (7%)
Query: 43 DVTVHVGGTSFSLHKFPLVSKCGYIRKLVSVSSEADLSVIEIPDVPGGAEAFELAAKFCY 102
D T V G F HK L + Y + L + D+ ++I + G + E F Y
Sbjct: 27 DCTFVVDGVHFKAHKAVLAACSEYFKMLFV--DQKDVVHLDISNAAGLGQVLE----FMY 80
Query: 103 GINFEINTENVAGLRCVAEYLEMTE 127
++ ENV + VA +L+M +
Sbjct: 81 TAKLSLSPENVDDVLAVATFLQMQD 105
>pdb|4F9D|A Chain A, Structure Of Escherichia Coli Pgab 42-655 In Complex With
Nickel
pdb|4F9D|B Chain B, Structure Of Escherichia Coli Pgab 42-655 In Complex With
Nickel
Length = 618
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 217 WWAEDLTVLRIDVFQRVLIAMMAR-GFKQYALGPVLMLYAQKSLRGLEVFGKGRKKIEPH 275
W+ L ++ D+F RV + R G YA PVL +L ++ G KK + H
Sbjct: 332 WFPNRLLPMKADIFSRVAWQLRTRSGVNIYAWMPVLSWDLDPTLTRVKYLPTGEKKAQIH 391
Query: 276 QEHEKRV 282
E R+
Sbjct: 392 PEQYHRL 398
>pdb|4F9J|A Chain A, Structure Of Escherichia Coli Pgab 42-655 In Complex With
Iron
pdb|4F9J|B Chain B, Structure Of Escherichia Coli Pgab 42-655 In Complex With
Iron
Length = 618
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 29/67 (43%), Gaps = 1/67 (1%)
Query: 217 WWAEDLTVLRIDVFQRVLIAMMAR-GFKQYALGPVLMLYAQKSLRGLEVFGKGRKKIEPH 275
W+ L + D+F RV + R G YA PVL +L ++ G KK + H
Sbjct: 332 WFPNRLLPXKADIFSRVAWQLRTRSGVNIYAWXPVLSWDLDPTLTRVKYLPTGEKKAQIH 391
Query: 276 QEHEKRV 282
E R+
Sbjct: 392 PEQYHRL 398
>pdb|3O6X|A Chain A, Crystal Structure Of The Type Iii Glutamine Synthetase
From Bacteroides Fragilis
pdb|3O6X|B Chain B, Crystal Structure Of The Type Iii Glutamine Synthetase
From Bacteroides Fragilis
pdb|3O6X|C Chain C, Crystal Structure Of The Type Iii Glutamine Synthetase
From Bacteroides Fragilis
pdb|3O6X|D Chain D, Crystal Structure Of The Type Iii Glutamine Synthetase
From Bacteroides Fragilis
pdb|3O6X|E Chain E, Crystal Structure Of The Type Iii Glutamine Synthetase
From Bacteroides Fragilis
pdb|3O6X|F Chain F, Crystal Structure Of The Type Iii Glutamine Synthetase
From Bacteroides Fragilis
Length = 729
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 304 SVLLRAAIYLETTVACRLDLEKR---MALQLGQAVLDDLLI 341
+VL+ I+ ET +ACRL++E M +Q+ VL DL I
Sbjct: 572 AVLIGERIFNETELACRLEVELEKYTMKVQIESRVLGDLAI 612
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
0.318 0.133 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,433,346
Number of Sequences: 62578
Number of extensions: 644537
Number of successful extensions: 1691
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1689
Number of HSP's gapped (non-prelim): 19
length of query: 623
length of database: 14,973,337
effective HSP length: 105
effective length of query: 518
effective length of database: 8,402,647
effective search space: 4352571146
effective search space used: 4352571146
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)