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= 045349
(152 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 39/81 (48%), Gaps = 15/81 (18%)
Query: 21 EKHRRMLMKDLISQLASLIPS--NSKLSMPQILDDATSYIMH-------LQKNKESLERK 71
E+ RR +KD L +PS K S QILD AT YI + LQ++ + L+R+
Sbjct: 12 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDIDDLKRQ 71
Query: 72 KALLKGDDHTEPSVMNITTSG 92
ALL E V + SG
Sbjct: 72 NALL------EQQVRALEGSG 86
>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 = 35.0 bits (79), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 21 EKHRRMLMKDLISQLASLIPS--NSKLSMPQILDDATSYIMHL-------QKNKESLERK 71
E+ RR +KD L +PS K S QILD AT YI ++ Q++ + L+R+
Sbjct: 10 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 69
Query: 72 KALLK 76
ALL+
Sbjct: 70 NALLE 74
>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 = 34.7 bits (78), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 21 EKHRRMLMKDLISQLASLIPS--NSKLSMPQILDDATSYIMHL-------QKNKESLERK 71
E+ RR +KD L +PS K S QILD AT YI ++ Q++ + L+R+
Sbjct: 9 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 68
Query: 72 KALLK 76
ALL+
Sbjct: 69 NALLE 73
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 34.3 bits (77), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 21 EKHRRMLMKDLISQLASLIPS--NSKLSMPQILDDATSYIMHL-------QKNKESLERK 71
E+ RR +KD L +PS K S QILD AT YI ++ Q++ + L+R+
Sbjct: 11 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 70
Query: 72 KALLK 76
ALL+
Sbjct: 71 NALLE 75
>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 = 32.7 bits (73), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 21 EKHRRMLMKDLISQLASLIPS--NSKLSMPQILDDATSYIMHLQK 63
E+ RR +KD L +PS K S QILD AT YI ++++
Sbjct: 20 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRR 64
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 21 EKHRRMLMKDLISQLASLIPSNSKLSMPQILDDATSYIMHLQ 62
EK RR M I +LASL+P+ + +M + LD T M +Q
Sbjct: 21 EKRRRDKMNSFIDELASLVPTCN--AMSRKLDKLTVLRMAVQ 60
>pdb|4H10|A Chain A, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 73
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 21 EKHRRMLMKDLISQLASLIPSNSKLSMPQILDDATSYIMHLQ 62
EK RR M I +LASL+P+ + +M + LD T M +Q
Sbjct: 17 EKRRRDKMNSFIDELASLVPTCN--AMSRKLDKLTVLRMAVQ 56
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 26.2 bits (56), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 20 NEKHRRMLMKDLISQLASLIPSNS-KLSMPQILDDATSYIMHLQKNKESLERKKA 73
+EK RR LI +L S++P N+ K+ +L + + L+K+KE+ + A
Sbjct: 19 SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDF---LRKHKETTAQSDA 70
>pdb|4AYA|A Chain A, Crystal Structure Of Id2 Hlh Homodimer At 2.1a
Resolution
pdb|4AYA|B Chain B, Crystal Structure Of Id2 Hlh Homodimer At 2.1a
Resolution
Length = 97
Score = 25.8 bits (55), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 28 MKDLISQLASLIPS---NSKLSMPQILDDATSYIMHLQ 62
M D S+L L+PS N K+S +IL YI+ LQ
Sbjct: 40 MNDCYSKLKELVPSIPQNKKVSKMEILQHVIDYILDLQ 77
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
0.319 0.131 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,044,163
Number of Sequences: 62578
Number of extensions: 91055
Number of successful extensions: 210
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 205
Number of HSP's gapped (non-prelim): 13
length of query: 152
length of database: 14,973,337
effective HSP length: 90
effective length of query: 62
effective length of database: 9,341,317
effective search space: 579161654
effective search space used: 579161654
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: 47 (22.7 bits)