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= 009555
(532 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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 331 AGKPTKHFATERQRREQLNGKFKALKDLVPN--PTKNDRASVVGDAIEYIKELLRTVNEL 388
A K H A ER+RR+ + F +L+D VP+ K RA ++ A EYI+ + R V+ L
Sbjct: 2 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTL 61
Query: 389 K 389
+
Sbjct: 62 Q 62
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 331 AGKPTKHFATERQRREQLNGKFKALKDLVPN--PTKNDRASVVGDAIEYIKELLR 383
A K H A ER+RR+ + F +L+D VP+ K RA ++ A EYI+ + R
Sbjct: 10 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRR 64
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 331 AGKPTKHFATERQRREQLNGKFKALKDLVPN--PTKNDRASVVGDAIEYIKELLR 383
A K H A ER+RR+ + F +L+D VP+ K RA ++ A EYI+ + R
Sbjct: 1 ADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRR 55
>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 = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 333 KPTKHFATERQRREQLNGKFKALKDLVPN--PTKNDRASVVGDAIEYIKELLR 383
K H A ER+RR+ + F +L+D VP+ K RA ++ A EYI+ + R
Sbjct: 2 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRR 54
>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 = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 333 KPTKHFATERQRREQLNGKFKALKDLVPN--PTKNDRASVVGDAIEYIKELLR 383
K H A ER+RR+ + F +L+D VP+ K RA ++ A EYI+ + R
Sbjct: 1 KRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRR 53
>pdb|1AM9|A Chain A, Human Srebp-1a Bound To Ldl Receptor Promoter
pdb|1AM9|B Chain B, Human Srebp-1a Bound To Ldl Receptor Promoter
pdb|1AM9|C Chain C, Human Srebp-1a Bound To Ldl Receptor Promoter
pdb|1AM9|D Chain D, Human Srebp-1a Bound To Ldl Receptor Promoter
Length = 82
Score = 35.0 bits (79), Expect = 0.091, Method: Composition-based stats.
Identities = 22/58 (37%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 333 KPTKHFATERQRREQLNGKFKALKDL-VPNPTKNDRASVVGDAIEYIKELLRTVNELK 389
K T H A E++ R +N K LKDL V K ++++V+ AI+YI+ L + +LK
Sbjct: 6 KRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLK 63
>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 = 33.1 bits (74), Expect = 0.41, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 333 KPTKHFATERQRREQLNGKFKALKDLVPNPTKNDRASVV 371
K H ERQRR +L F AL+D +P N++A V
Sbjct: 6 KRRTHNVLERQRRNELKRSFFALRDQIPELENNEKAPKV 44
>pdb|4ATI|A Chain A, Mitf:m-Box Complex
pdb|4ATI|B Chain B, Mitf:m-Box Complex
pdb|4ATK|A Chain A, Mitf:e-Box Complex
pdb|4ATK|B Chain B, Mitf:e-Box Complex
Length = 118
Score = 32.0 bits (71), Expect = 0.81, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 4/63 (6%)
Query: 333 KPTKHFATERQRREQLNGKFKALKDLVPNPTKND----RASVVGDAIEYIKELLRTVNEL 388
K H ER+RR +N + K L L+P D + +++ +++YI++L R
Sbjct: 27 KKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRA 86
Query: 389 KLL 391
K L
Sbjct: 87 KDL 89
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 29/42 (69%), Gaps = 1/42 (2%)
Query: 340 TERQRREQLNGKFKALKDLVP-NPTKNDRASVVGDAIEYIKE 380
+E++RR+Q N K L ++P N K D+++V+ +I+++++
Sbjct: 19 SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRK 60
>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 = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 29/42 (69%), Gaps = 1/42 (2%)
Query: 340 TERQRREQLNGKFKALKDLVP-NPTKNDRASVVGDAIEYIKE 380
+E++RR+Q N K L ++P N K D+++V+ +I+++++
Sbjct: 15 SEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRK 56
>pdb|3U5V|A Chain A, Crystal Structure Of Max-E47
Length = 76
Score = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 331 AGKPTKHFATERQRREQLNGKFKALKDLVPNPTKNDRAS----VVGDAIEYIKELLRTVN 386
A K H A ER+RR +N F+ L + K+D+A ++ A++ I L + V
Sbjct: 3 ADKRAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVR 62
Query: 387 ELKL 390
E L
Sbjct: 63 ERNL 66
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 315 LEFSRDLGCIGRRRETAGKPTKHFATERQRREQLNGKFKALKDLVPN----PTKNDRASV 370
+E++ G I RE H E++RR+++N L LVP K D+ +V
Sbjct: 1 MEYAEHQGRIKNAREA------HSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTV 54
Query: 371 VGDAIEYIKELLRTVN 386
+ A++++K L N
Sbjct: 55 LRMAVQHMKTLRGATN 70
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 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,612,606
Number of Sequences: 62578
Number of extensions: 550107
Number of successful extensions: 1209
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1202
Number of HSP's gapped (non-prelim): 13
length of query: 532
length of database: 14,973,337
effective HSP length: 103
effective length of query: 429
effective length of database: 8,527,803
effective search space: 3658427487
effective search space used: 3658427487
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: 54 (25.4 bits)