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= psy4627
(270 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QL2|B Chain B, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of
The Heterodimer E47NEUROD1 BOUND TO DNA
pdb|2QL2|D Chain D, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of
The Heterodimer E47NEUROD1 BOUND TO DNA
Length = 60
Score = 53.9 bits (128), Expect = 1e-07, Method: Composition-based stats.
Identities = 30/57 (52%), Positives = 38/57 (66%), Gaps = 1/57 (1%)
Query: 157 SQRILANVRERQRTQSLNEAFTSLRKLIPALP-SDKLSKIQTLKLASRYIHFLCEIL 212
S+R+ AN RER R LN A +LRK++P + KLSKI+TL+LA YI L EIL
Sbjct: 1 SRRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSKIETLRLAKNYIWALSEIL 57
>pdb|1MDY|B Chain B, Crystal Structure Of Myod Bhlh Domain Bound To Dna:
Perspectives On Dna Recognition And Implications For
Transcriptional Activation
pdb|1MDY|C Chain C, Crystal Structure Of Myod Bhlh Domain Bound To Dna:
Perspectives On Dna Recognition And Implications For
Transcriptional Activation
pdb|1MDY|D Chain D, Crystal Structure Of Myod Bhlh Domain Bound To Dna:
Perspectives On Dna Recognition And Implications For
Transcriptional Activation
Length = 62
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 158 QRILANVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFLCEILH 213
+R A +RER+R +NEAF +L++ + P+ +L K++ L+ A RYI L +L
Sbjct: 6 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 61
>pdb|1MDY|A Chain A, Crystal Structure Of Myod Bhlh Domain Bound To Dna:
Perspectives On Dna Recognition And Implications For
Transcriptional Activation
Length = 68
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 35/56 (62%)
Query: 158 QRILANVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFLCEILH 213
+R A +RER+R +NEAF +L++ + P+ +L K++ L+ A RYI L +L
Sbjct: 12 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKVEILRNAIRYIEGLQALLR 67
>pdb|1HLO|A Chain A, The Crystal Structure Of An Intact Human Max-Dna Complex:
New Insights Into Mechanisms Of Transcriptional Control
pdb|1HLO|B Chain B, The Crystal Structure Of An Intact Human Max-Dna Complex:
New Insights Into Mechanisms Of Transcriptional Control
Length = 80
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 30/51 (58%)
Query: 158 QRILANVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFL 208
+R N ER+R + ++F SLR +P+L +K S+ Q L A+ YI ++
Sbjct: 12 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYM 62
>pdb|1R05|A Chain A, Solution Structure Of Max B-Hlh-Lz
pdb|1R05|B Chain B, Solution Structure Of Max B-Hlh-Lz
Length = 87
Score = 38.1 bits (87), Expect = 0.005, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 33/59 (55%)
Query: 155 LHSQRILANVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFLCEILH 213
+ +R N ER+R + ++F SLR +P+L +K S+ Q L A+ YI ++ +H
Sbjct: 1 MADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVH 59
>pdb|1NLW|B Chain B, Crystal Structure Of Mad-Max Recognizing Dna
pdb|1NLW|E Chain E, Crystal Structure Of Mad-Max Recognizing Dna
Length = 76
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 30/51 (58%)
Query: 158 QRILANVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFL 208
+R N ER+R + ++F SLR +P+L +K S+ Q L A+ YI ++
Sbjct: 1 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYM 51
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 28/46 (60%)
Query: 163 NVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFL 208
N ER+R + ++F SLR +P+L +K S+ Q L A+ YI ++
Sbjct: 8 NALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYM 53
>pdb|1NKP|B Chain B, Crystal Structure Of Myc-Max Recognizing Dna
pdb|1NKP|E Chain E, Crystal Structure Of Myc-Max Recognizing Dna
Length = 83
Score = 36.6 bits (83), Expect = 0.016, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 30/51 (58%)
Query: 158 QRILANVRERQRTQSLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIHFL 208
+R N ER+R + ++F SLR +P+L +K S+ Q L A+ YI ++
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYM 52
>pdb|2QL2|A Chain A, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of
The Heterodimer E47NEUROD1 BOUND TO DNA
pdb|2QL2|C Chain C, Crystal Structure Of The Basic-Helix-Loop-Helix Domains Of
The Heterodimer E47NEUROD1 BOUND TO DNA
Length = 60
Score = 27.7 bits (60), Expect = 6.9, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 2/50 (4%)
Query: 158 QRILANVRERQRTQSLNEAFTSLRKLIPA-LPSDKL-SKIQTLKLASRYI 205
+R+ N RER R + +NEAF L ++ L SDK +K+ L+ A + I
Sbjct: 1 RRMANNARERVRVRDINEAFRELGRMCQLHLKSDKAQTKLLILQQAVQVI 50
>pdb|3RDH|A Chain A, X-Ray Induced Covalent Inhibition Of 14-3-3
pdb|3RDH|B Chain B, X-Ray Induced Covalent Inhibition Of 14-3-3
pdb|3RDH|C Chain C, X-Ray Induced Covalent Inhibition Of 14-3-3
pdb|3RDH|D Chain D, X-Ray Induced Covalent Inhibition Of 14-3-3
Length = 248
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 8/88 (9%)
Query: 150 QTYGELHSQRILANVRERQRTQ---SLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIH 206
+T G Q++ RE+ T+ N+ + L K + S SK+ LK+ Y
Sbjct: 71 KTEGAEKKQQMAREYREKIETELRDICNDVLSLLEKFLIPNASQAESKVFYLKMKGDYYR 130
Query: 207 FLCEILHGSEDGDGNNTEIVDQDRELFN 234
+L E+ G +D G IVDQ ++ +
Sbjct: 131 YLAEVAAG-DDKKG----IVDQSQQAYQ 153
>pdb|2C1J|A Chain A, Molecular Basis For The Recognition Of Phosphorylated And
Phosphoacetylated Histone H3 By 14-3-3
pdb|2C1J|B Chain B, Molecular Basis For The Recognition Of Phosphorylated And
Phosphoacetylated Histone H3 By 14-3-3
pdb|2C1N|A Chain A, Molecular Basis For The Recognition Of Phosphorylated And
Phosphoacetylated Histone H3 By 14-3-3
pdb|2C1N|B Chain B, Molecular Basis For The Recognition Of Phosphorylated And
Phosphoacetylated Histone H3 By 14-3-3
Length = 258
Score = 27.3 bits (59), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 8/88 (9%)
Query: 150 QTYGELHSQRILANVRERQRTQ---SLNEAFTSLRKLIPALPSDKLSKIQTLKLASRYIH 206
+T G Q++ RE+ T+ N+ + L K + S SK+ LK+ Y
Sbjct: 81 KTEGAEKKQQMAREYREKIETELRDICNDVLSLLEKFLIPNASQAESKVFYLKMKGDYYR 140
Query: 207 FLCEILHGSEDGDGNNTEIVDQDRELFN 234
+L E+ G +D G IVDQ ++ +
Sbjct: 141 YLAEVAAG-DDKKG----IVDQSQQAYQ 163
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
0.310 0.130 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,972,691
Number of Sequences: 62578
Number of extensions: 320806
Number of successful extensions: 480
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 468
Number of HSP's gapped (non-prelim): 21
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (24.3 bits)