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= psy6235
(76 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 = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 37 RREIANSNERRRMQSINAGFQSLRTLLP-HHEGEKLSK 73
RR AN+ ER RM +NA +LR ++P + + +KLSK
Sbjct: 2 RRMKANARERNRMHGLNAALDNLRKVVPCYSKTQKLSK 39
>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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 42 NSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
N+ ER+R I F SLR +P +GEK S+
Sbjct: 17 NALERKRRDHIKDSFHSLRDSVPSLQGEKASRA 49
>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 = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 42 NSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
N+ ER+R I F SLR +P +GEK S+
Sbjct: 9 NALERKRRDHIKDSFHSLRDSVPSLQGEKASRA 41
>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 = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 42 NSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
N+ ER+R I F SLR +P +GEK S+
Sbjct: 7 NALERKRRDHIKDSFHSLRDSVPSLQGEKASRA 39
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 42 NSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
N+ ER+R I F SLR +P +GEK S+
Sbjct: 8 NALERKRRDHIKDSFHSLRDSVPSLQGEKASRA 40
>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 = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 42 NSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
N+ ER+R I F SLR +P +GEK S+
Sbjct: 6 NALERKRRDHIKDSFHSLRDSVPSLQGEKASRA 38
>pdb|1M5I|A Chain A, Crystal Structure Of The Coiled Coil Region 129-250 Of The
Tumor Suppressor Gene Product Apc
Length = 125
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 26 LTPCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHH--EGEKLSKTIH 76
L C D EKR +R IA R+Q I +R LL E E+ S+ H
Sbjct: 79 LGTCQDMEKRAQRRIA------RIQQIEKDILRIRQLLQSQATEAERSSQNKH 125
>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 = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
RR+ A ERRR+ +N F++L+ + ++L K
Sbjct: 6 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKV 43
>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 = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 37 RREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74
RR+ A ERRR+ +N F++L+ + ++L K
Sbjct: 12 RRKAATMRERRRLSKVNEAFETLKRSTSSNPNQRLPKV 49
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
0.316 0.131 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,150,594
Number of Sequences: 62578
Number of extensions: 61081
Number of successful extensions: 83
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 75
Number of HSP's gapped (non-prelim): 9
length of query: 76
length of database: 14,973,337
effective HSP length: 45
effective length of query: 31
effective length of database: 12,157,327
effective search space: 376877137
effective search space used: 376877137
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)