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= 021355
(313 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 = 37.7 bits (86), Expect = 0.008, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 2/72 (2%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS--KMDKASIIGDAVSYLQELQMQVRKLKAEIASLEYS 188
ERKRR +K+ + LR VP++ K +A I+ A Y+Q ++ +V L+ +I L+
Sbjct: 12 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDIDDLKRQ 71
Query: 189 MAGSEKNQEPIQ 200
A E+ ++
Sbjct: 72 NALLEQQVRALE 83
>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 = 0.084, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS--KMDKASIIGDAVSYLQELQMQVRKLKAEIASLEYS 188
ERKRR +K+ + LR VP++ K +A I+ A Y+Q ++ + + +I L+
Sbjct: 11 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 70
Query: 189 MAGSEKNQEPIQKPK 203
A E+ ++K +
Sbjct: 71 NALLEQQVRALEKAR 85
>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 = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 129 VSERKRRGKMKEKLYGLRALVPNISKMDKAS---IIGDAVSYLQELQMQVRKLKAE 181
V ER+RR ++K + LR +P + +KA I+ A +Y+ +Q + +KL +E
Sbjct: 12 VLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISE 67
>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 = 32.3 bits (72), Expect = 0.31, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 9/65 (13%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS--KMDKASIIGDAVSYLQEL-------QMQVRKLKAE 181
ERKRR +K+ + LR VP++ K +A I+ A Y+Q + Q + LK +
Sbjct: 10 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 69
Query: 182 IASLE 186
A LE
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 = 32.0 bits (71), Expect = 0.40, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS--KMDKASIIGDAVSYLQELQMQVRKLKAEIASLEYS 188
ERKRR +K+ + LR VP++ K +A I+ A Y+Q ++ + + +I L+
Sbjct: 9 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 68
Query: 189 MAGSEK 194
A E+
Sbjct: 69 NALLEQ 74
>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 = 31.2 bits (69), Expect = 0.77, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS--KMDKASIIGDAVSYLQELQMQVRKLKAEIASLE 186
ERKRR +K+ + LR VP++ K +A I+ A Y+Q ++ + + +I L+
Sbjct: 20 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLK 77
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 44/96 (45%), Gaps = 9/96 (9%)
Query: 194 KNQEPIQKPKKSQVLSGNLQ-PICKKIMQIDVFQ--VEERRFYLRLVSSRGQGVAVSLYK 250
KN+ P + + +V S ++ P +DV + E R L L G G ++L
Sbjct: 1265 KNKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHR-PLILCGPPGSGKTMTLTS 1323
Query: 251 ALESLTSFDVQNFNF--ATEPERLVLTFNLNVKDCE 284
L + F+V + NF AT PE L+ TF+ CE
Sbjct: 1324 TLRAFPDFEVVSLNFSSATTPELLLKTFD---HHCE 1356
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 44/96 (45%), Gaps = 9/96 (9%)
Query: 194 KNQEPIQKPKKSQVLSGNLQ-PICKKIMQIDVFQ--VEERRFYLRLVSSRGQGVAVSLYK 250
KN+ P + + +V S ++ P +DV + E R L L G G ++L
Sbjct: 1265 KNKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHR-PLILCGPPGSGKTMTLTS 1323
Query: 251 ALESLTSFDVQNFNF--ATEPERLVLTFNLNVKDCE 284
L + F+V + NF AT PE L+ TF+ CE
Sbjct: 1324 TLRAFPDFEVVSLNFSSATTPELLLKTFD---HHCE 1356
>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 = 28.1 bits (61), Expect = 6.8, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS----KMDKASIIGDAVSYLQELQ 172
E++RR KM + L +LVP + K+DK +++ AV +++ L+
Sbjct: 17 EKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 28/46 (60%), Gaps = 4/46 (8%)
Query: 131 ERKRRGKMKEKLYGLRALVPNIS----KMDKASIIGDAVSYLQELQ 172
E++RR KM + L +LVP + K+DK +++ AV +++ L+
Sbjct: 21 EKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
>pdb|2K31|A Chain A, Solution Structure Of Cgmp-Binding Gaf Domain Of
Phosphodiesterase 5
Length = 176
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 4 FGNPLTLLDFIDDPNFDQFIDLIRG 28
FG PL + D +DP F+ +D I G
Sbjct: 74 FGEPLNIKDAYEDPRFNAEVDQITG 98
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
0.318 0.136 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,718,877
Number of Sequences: 62578
Number of extensions: 333688
Number of successful extensions: 701
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 696
Number of HSP's gapped (non-prelim): 16
length of query: 313
length of database: 14,973,337
effective HSP length: 99
effective length of query: 214
effective length of database: 8,778,115
effective search space: 1878516610
effective search space used: 1878516610
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)