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= 037241
(306 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 100 HIWTERERRKKMRNMFANLHSLLPQLP-PKADKSSIVDEAVSYI 142
H ER+RR +++ F +L +P L KA ++ I+D+A YI
Sbjct: 6 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 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 = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 100 HIWTERERRKKMRNMFANLHSLLPQLP-PKADKSSIVDEAVSYI 142
H ER+RR +++ F +L +P L KA ++ I+D+A YI
Sbjct: 8 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 51
>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 = 30.4 bits (67), Expect = 1.3, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 88 VKVKEGESEHEIHIWTERERRKKMRNMFANLHSLLPQLP-PKADKSSIVDEAVSYI 142
++V+ + H ER+RR +++ F +L +P L KA ++ I+D+A YI
Sbjct: 4 IEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 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 = 29.6 bits (65), Expect = 2.1, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 100 HIWTERERRKKMRNMFANLHSLLPQLP-PKADKSSIVDEAVSYI 142
H ER+RR +++ F +L +P L KA ++ I+D+A YI
Sbjct: 5 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 48
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 100 HIWTERERRKKMRNMFANLHSLLPQLP-PKADKSSIVDEAVSYI 142
H ER+RR +++ F +L +P L KA ++ I+D+A YI
Sbjct: 7 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 50
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 9/61 (14%)
Query: 83 DDK-KAVKVKEGESEHEIHIWTERERRKKMRNMFANLHSLLPQLPPKADKSSIVDEAVSY 141
DDK KA +V +SE ++RR + + L S+LP K DKS+++ +++ +
Sbjct: 6 DDKDKAKRVSRNKSE--------KKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDF 57
Query: 142 I 142
+
Sbjct: 58 L 58
>pdb|4H10|B Chain B, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 71
Score = 28.5 bits (62), Expect = 5.6, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 83 DDKKAVKVKEGESEHEIHIWTERERRKKMRNMFANLHSLLPQLPPKADKSSIVDEAVSYI 142
D KA +V +SE ++RR + + L S+LP K DKS+++ +++ ++
Sbjct: 3 DKDKAKRVSRNKSE--------KKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFL 54
>pdb|1NKP|A Chain A, Crystal Structure Of Myc-Max Recognizing Dna
pdb|1NKP|D Chain D, Crystal Structure Of Myc-Max Recognizing Dna
Length = 88
Score = 27.7 bits (60), Expect = 8.0, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 100 HIWTERERRKKMRNMFANLHSLLPQLP--PKADKSSIVDEAVSYI 142
H ER+RR +++ F L +P+L KA K I+ +A +YI
Sbjct: 10 HNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYI 54
>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 = 27.7 bits (60), Expect = 9.0, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 94 ESEHEIHIWTERERRKKMRNMFANLHSLLPQ---LPPKADKSSIVDEAVSYI 142
++ E H E+ RR KM + L SL+P + K DK +++ AV ++
Sbjct: 7 KNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHM 58
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
0.313 0.127 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,562,356
Number of Sequences: 62578
Number of extensions: 187801
Number of successful extensions: 265
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 263
Number of HSP's gapped (non-prelim): 10
length of query: 306
length of database: 14,973,337
effective HSP length: 98
effective length of query: 208
effective length of database: 8,840,693
effective search space: 1838864144
effective search space used: 1838864144
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)