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= 005651
(685 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 = 45.1 bits (105), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 505 NHVEAERQRREKLNQRFYALRAVVPNVS--KMDKASLLGDAISYINELRTKLQSAESDKE 562
+H ER+RR+ + F++LR VP++ K +A +L A YI +R K+ + + D +
Sbjct: 7 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDID 66
Query: 563 DLQKELASVKKEL 575
DL+++ A +++++
Sbjct: 67 DLKRQNALLEQQV 79
>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 = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 45/77 (58%), Gaps = 2/77 (2%)
Query: 505 NHVEAERQRREKLNQRFYALRAVVPNVS--KMDKASLLGDAISYINELRTKLQSAESDKE 562
+H ER+RR+ + F++LR VP++ K +A +L A YI +R K + + D +
Sbjct: 5 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 64
Query: 563 DLQKELASVKKELAGGG 579
DL+++ A +++++ G
Sbjct: 65 DLKRQNALLEQQVRALG 81
>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 = 42.4 bits (98), Expect = 9e-04, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 505 NHVEAERQRREKLNQRFYALRAVVPNVS--KMDKASLLGDAISYINELRTKLQSAESDKE 562
+H ER+RR+ + F++LR VP++ K +A +L A YI +R K + + D +
Sbjct: 4 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 63
Query: 563 DLQKELASVKKEL 575
DL+++ A +++++
Sbjct: 64 DLKRQNALLEQQV 76
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 505 NHVEAERQRREKLNQRFYALRAVVPNVS--KMDKASLLGDAISYINELRTKLQSAESDKE 562
+H ER+RR+ + F++LR VP++ K +A +L A YI +R K + + D +
Sbjct: 6 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 65
Query: 563 DLQKELASVKKEL 575
DL+++ A +++++
Sbjct: 66 DLKRQNALLEQQV 78
>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 = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 38/65 (58%), Gaps = 2/65 (3%)
Query: 505 NHVEAERQRREKLNQRFYALRAVVPNVS--KMDKASLLGDAISYINELRTKLQSAESDKE 562
+H ER+RR+ + F++LR VP++ K +A +L A YI +R K + + D +
Sbjct: 15 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDID 74
Query: 563 DLQKE 567
DL+++
Sbjct: 75 DLKRQ 79
>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 = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 3/73 (4%)
Query: 506 HVEAERQRREKLNQRFYALRAVVP---NVSKMDKASLLGDAISYINELRTKLQSAESDKE 562
H ERQRR +L + F+ALR +P N K K +L A +YI ++ + Q S+++
Sbjct: 10 HNVLERQRRNELKRSFFALRDQIPELENNEKAPKVVILKKATAYILSVQAEEQKLISEED 69
Query: 563 DLQKELASVKKEL 575
L+K +K +L
Sbjct: 70 LLRKRREQLKHKL 82
>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 = 39.3 bits (90), Expect = 0.008, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 497 ANGREEPLNHVEAERQRREKLNQRFYALRAVVPNVSKMD----KASLLGDAISYINELRT 552
A R++ NH ER+RR +N R L ++P + D K ++L ++ YI +L+
Sbjct: 22 AKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQR 81
Query: 553 KLQSAESDKEDLQKELASVKKEL 575
+ Q A+ D E+ QK+L + L
Sbjct: 82 EQQRAK-DLENRQKKLEHANRHL 103
>pdb|1AN4|A Chain A, Structure And Function Of The BHLHZ DOMAIN OF USF
pdb|1AN4|B Chain B, Structure And Function Of The BHLHZ DOMAIN OF USF
Length = 65
Score = 33.5 bits (75), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 506 HVEAERQRREKLNQRFYALRAVVPNVSK------MDKASLLGDAISYINELR 551
H E ER+RR+K+N L ++P+ S K +L A YI ELR
Sbjct: 9 HNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 7/58 (12%)
Query: 498 NGREEPLNHVEAERQRREKLNQRFYALRAVVPNVS----KMDKASLLGDAISYINELR 551
N RE H + E++RR+K+N L ++VP + K+DK ++L A+ ++ LR
Sbjct: 12 NAREA---HSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
>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 = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 7/58 (12%)
Query: 498 NGREEPLNHVEAERQRREKLNQRFYALRAVVPNVS----KMDKASLLGDAISYINELR 551
N RE H + E++RR+K+N L ++VP + K+DK ++L A+ ++ LR
Sbjct: 8 NAREA---HSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>pdb|3TCV|A Chain A, Crystal Structure Of A Gcn5-Related N-Acetyltransferase
From Brucella Melitensis
pdb|3TCV|B Chain B, Crystal Structure Of A Gcn5-Related N-Acetyltransferase
From Brucella Melitensis
Length = 246
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 215 GQVFGLQTLVCIPSANGVVELGSTEV--IIQNSDLMNKVRFLF 255
G+V G Q L+ I ANGV+E+GS +I + +FLF
Sbjct: 109 GKVAGRQALMRIDPANGVIEIGSIYWGPLISRRPAATEAQFLF 151
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
0.312 0.127 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,050,988
Number of Sequences: 62578
Number of extensions: 542008
Number of successful extensions: 1363
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1354
Number of HSP's gapped (non-prelim): 16
length of query: 685
length of database: 14,973,337
effective HSP length: 105
effective length of query: 580
effective length of database: 8,402,647
effective search space: 4873535260
effective search space used: 4873535260
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)