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= psy12101
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HJB|A Chain A, Crystal Structure Of Runx-1AML1CBFALPHA RUNT DOMAIN AND
CEBPBETA BZIP DIMERIC BOUND TO A DNA FRAGMENT FROM
THE Csf-1r Promoter
pdb|1HJB|B Chain B, Crystal Structure Of Runx-1AML1CBFALPHA RUNT DOMAIN AND
CEBPBETA BZIP DIMERIC BOUND TO A DNA FRAGMENT FROM
THE Csf-1r Promoter
pdb|1HJB|D Chain D, Crystal Structure Of Runx-1AML1CBFALPHA RUNT DOMAIN AND
CEBPBETA BZIP DIMERIC BOUND TO A DNA FRAGMENT FROM
THE Csf-1r Promoter
pdb|1HJB|E Chain E, Crystal Structure Of Runx-1AML1CBFALPHA RUNT DOMAIN AND
CEBPBETA BZIP DIMERIC BOUND TO A DNA FRAGMENT FROM
THE Csf-1r Promoter
Length = 87
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 37/48 (77%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
AV++SR K++++ ET +V +L EN+ L++K++ LSRELS L+NLF
Sbjct: 26 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 73
>pdb|2E43|A Chain A, Crystal Structure Of CEBPBETA BZIP HOMODIMER K269A
MUTANT Bound To A High Affinity Dna Fragment
pdb|2E43|B Chain B, Crystal Structure Of CEBPBETA BZIP HOMODIMER K269A
MUTANT Bound To A High Affinity Dna Fragment
Length = 78
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 37/48 (77%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
AV++SR K++++ ET +V +L EN+ L++K++ LSRELS L+NLF
Sbjct: 26 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 73
>pdb|1IO4|A Chain A, Crystal Structure Of Runx-1AML1CBFALPHA RUNT DOMAIN-
Cbfbeta Core Domain Heterodimer And CEBPBETA BZIP
Homodimer Bound To A Dna Fragment From The Csf-1r
Promoter
pdb|1IO4|B Chain B, Crystal Structure Of Runx-1AML1CBFALPHA RUNT DOMAIN-
Cbfbeta Core Domain Heterodimer And CEBPBETA BZIP
Homodimer Bound To A Dna Fragment From The Csf-1r
Promoter
pdb|1H88|A Chain A, Crystal Structure Of Ternary Protein-Dna Complex1
pdb|1H88|B Chain B, Crystal Structure Of Ternary Protein-Dna Complex1
pdb|1H8A|A Chain A, Crystal Structure Of Ternary Protein-Dna Complex3
pdb|1H8A|B Chain B, Crystal Structure Of Ternary Protein-Dna Complex3
pdb|1GU4|A Chain A, Crystal Structure Of CEBPBETA BZIP DIMERIC BOUND TO A
High Affinity Dna Fragment
pdb|1GU4|B Chain B, Crystal Structure Of CEBPBETA BZIP DIMERIC BOUND TO A
High Affinity Dna Fragment
pdb|1GU5|A Chain A, Crystal Structure Of CEBPBETA BZIP DIMERIC BOUND TO A
Dna Fragment From The Mim-1 Promoter
pdb|1GU5|B Chain B, Crystal Structure Of CEBPBETA BZIP DIMERIC BOUND TO A
Dna Fragment From The Mim-1 Promoter
pdb|1GTW|A Chain A, Crystal Structure Of CEBPBETA BZIP DIMERIC BOUND TO A
Dna Fragment From The Tom-1a Promoter
pdb|1GTW|B Chain B, Crystal Structure Of CEBPBETA BZIP DIMERIC BOUND TO A
Dna Fragment From The Tom-1a Promoter
Length = 78
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 37/48 (77%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
AV++SR K++++ ET +V +L EN+ L++K++ LSRELS L+NLF
Sbjct: 26 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 73
>pdb|1H89|A Chain A, Crystal Structure Of Ternary Protein-Dna Complex2
pdb|1H89|B Chain B, Crystal Structure Of Ternary Protein-Dna Complex2
Length = 64
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 37/48 (77%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
AV++SR K++++ ET +V +L EN+ L++K++ LSRELS L+NLF
Sbjct: 12 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 59
>pdb|1CI6|B Chain B, Transcription Factor Atf4-CEBP BETA BZIP HETERODIMER
Length = 63
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 37/48 (77%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
AV++SR K++++ ET +V +L EN+ L++K++ LSRELS L+NLF
Sbjct: 13 AVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 60
>pdb|2E42|A Chain A, Crystal Structure Of CEBPBETA BZIP HOMODIMER V285A
MUTANT Bound To A High Affinity Dna Fragment
pdb|2E42|B Chain B, Crystal Structure Of CEBPBETA BZIP HOMODIMER V285A
MUTANT Bound To A High Affinity Dna Fragment
Length = 78
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 36/48 (75%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLKNLF 55
A ++SR K++++ ET +V +L EN+ L++K++ LSRELS L+NLF
Sbjct: 26 AARKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 73
>pdb|1NWQ|A Chain A, Crystal Structure Of CEBPALPHA-Dna Complex
pdb|1NWQ|C Chain C, Crystal Structure Of CEBPALPHA-Dna Complex
Length = 62
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 33/45 (73%)
Query: 8 AVKRSRVKSRIKTQETMERVNKLKTENDMLEEKIKILSRELSFLK 52
AV++SR K++ + ET ++V +L ++ND L ++++ LSREL L+
Sbjct: 17 AVRKSRDKAKQRNVETQQKVLELTSDNDRLRKRVEQLSRELDTLR 61
>pdb|4FE9|A Chain A, Crystal Structure Of Susf From Bacteroides
Thetaiotaomicron
Length = 470
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 31 KTENDMLEEKIKILSRELSFLKNLFLAHAGSTNGIDMDDIDLESLLADAVD 81
+ + D L+E + IL E+ N + A + NG +DID L +VD
Sbjct: 169 QMKKDALDENLYILEAEIESTSNFKIFPASAING---NDIDWTKALGSSVD 216
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
0.315 0.131 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,248,632
Number of Sequences: 62578
Number of extensions: 72418
Number of successful extensions: 264
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 253
Number of HSP's gapped (non-prelim): 11
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)