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= 039443
(137 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 = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 1 AQRNIKEKHRRTHMKDLISQLASLIPS--SSKLSMPEILDEATSYITH-------LQKNK 51
A N E+ RR H+KD L +PS K S +ILD+AT YI + LQ++
Sbjct: 6 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDI 65
Query: 52 ESLERRRALLKEE 64
+ L+R+ ALL+++
Sbjct: 66 DDLKRQNALLEQQ 78
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 1 AQRNIKEKHRRTHMKDLISQLASLIPS--SSKLSMPEILDEATSYITHL-------QKNK 51
A N E+ RR H+KD L +PS K S +ILD+AT YI ++ Q++
Sbjct: 4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 63
Query: 52 ESLERRRALLKEE 64
+ L+R+ ALL+++
Sbjct: 64 DDLKRQNALLEQQ 76
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 1 AQRNIKEKHRRTHMKDLISQLASLIPS--SSKLSMPEILDEATSYITHL-------QKNK 51
A N E+ RR H+KD L +PS K S +ILD+AT YI ++ Q++
Sbjct: 3 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 62
Query: 52 ESLERRRALLKEE 64
+ L+R+ ALL+++
Sbjct: 63 DDLKRQNALLEQQ 75
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 1 AQRNIKEKHRRTHMKDLISQLASLIPS--SSKLSMPEILDEATSYITHL-------QKNK 51
A N E+ RR H+KD L +PS K S +ILD+AT YI ++ Q++
Sbjct: 5 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 64
Query: 52 ESLERRRALLKEE 64
+ L+R+ ALL+++
Sbjct: 65 DDLKRQNALLEQQ 77
>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 = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 1 AQRNIKEKHRRTHMKDLISQLASLIPS--SSKLSMPEILDEATSYITHLQK 49
A N E+ RR H+KD L +PS K S +ILD+AT YI ++++
Sbjct: 14 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRR 64
>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 = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 1 AQRNIKEKHRRTHMKDLISQLASLIPSS------SKLSMPEILDEATSYITHLQK 49
AQ N E+ RR + + I QL+ +IP S S S IL +A+ YI L++
Sbjct: 7 AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 30.8 bits (68), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 5/72 (6%)
Query: 3 RNIKEKHRRTHMKDLISQLASLIPSSS-KLSMPEILDEATSYITHLQKNKESLERRRALL 61
RN EK RR LI +L S++P ++ K+ +L ++ I L+K+KE+ + A
Sbjct: 16 RNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKS---IDFLRKHKETTAQSDASE 72
Query: 62 KEEDHYEPTVMN 73
+D ++PT ++
Sbjct: 73 IRQD-WKPTFLS 83
>pdb|2CV6|A Chain A, Crystal Structure Of 8salpha Globulin, The Major Seed
Storage Protein Of Mungbean
Length = 424
Score = 30.0 bits (66), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 6/72 (8%)
Query: 56 RRRALLKEEDHY-----EPTVMNITTSGSTLEVNLICGSN-RNFMFHEIISVLEEGAAEV 109
R RA L E+D + P +N T++ + + +N RNF+ E +V+ E EV
Sbjct: 318 RYRAELSEDDVFIIPATYPVAINATSNLNFFAFGINAENNQRNFLAGEKDNVISEIPTEV 377
Query: 110 INVTQFNSGDRV 121
++VT SG++V
Sbjct: 378 LDVTFPASGEKV 389
>pdb|1A0A|A Chain A, Phosphate System Positive Regulatory Protein Pho4DNA
Complex
pdb|1A0A|B Chain B, Phosphate System Positive Regulatory Protein Pho4DNA
Complex
Length = 63
Score = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 7/51 (13%)
Query: 7 EKHRRTHMKDLISQLASLIPS-------SSKLSMPEILDEATSYITHLQKN 50
E+ RR + + +LASLIP+ S+ S ++ A YI HLQ+N
Sbjct: 10 EQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQN 60
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 29.3 bits (64), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 7 EKHRRTHMKDLISQLASLIPSSSKLS 32
EK RR M I +LASL+P+ + +S
Sbjct: 21 EKRRRDKMNSFIDELASLVPTCNAMS 46
>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 = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 7 EKHRRTHMKDLISQLASLIPSSSKLSMPEILDEAT 41
EK RR M I +LASL+P+ + +M LD+ T
Sbjct: 17 EKRRRDKMNSFIDELASLVPTCN--AMSRKLDKLT 49
>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 = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 3 RNIKEKHRRTHMKDLISQLASLIPSSS-KLSMPEILDEATSYITHLQKNKE 52
RN EK RR LI +L S++P ++ K+ +L ++ + L+K+KE
Sbjct: 12 RNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDF---LRKHKE 59
>pdb|3DLJ|A Chain A, Crystal Structure Of Human Carnosine Dipeptidase 1
pdb|3DLJ|B Chain B, Crystal Structure Of Human Carnosine Dipeptidase 1
Length = 485
Score = 26.9 bits (58), Expect = 3.7, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 14 MKDLISQLASLIPSSSKLSMPEILDE 39
M DL++ L SL+ SS + +P I DE
Sbjct: 251 MADLVALLGSLVDSSGHILVPGIYDE 276
>pdb|1Q9H|A Chain A, 3-Dimensional Structure Of Native Cel7a From Talaromyces
Emersonii
pdb|3PFJ|A Chain A, Crystal Structure Of Cel7a From Talaromyces Emersonii
pdb|3PFX|A Chain A, Crystal Structure Of Cel7a From Talaromyces Emersonii In
Complex With Cellobiose
pdb|3PFZ|A Chain A, Crystal Structure Of Cel7a From Talaromyces Emersonii In
Complex With Cellotetraose
pdb|3PL3|A Chain A, Crystal Structure Of Cel7a From Talaromyces Emersonii In
Complex With Cellopentaose
Length = 437
Score = 26.9 bits (58), Expect = 3.8, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 67 YEPTVMNITTSGSTLEVNLICGSN 90
YE T +T+SGS+L++N + GSN
Sbjct: 78 YEGT-YGVTSSGSSLKLNFVTGSN 100
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
0.315 0.129 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,490,556
Number of Sequences: 62578
Number of extensions: 120453
Number of successful extensions: 348
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 334
Number of HSP's gapped (non-prelim): 22
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 46 (22.3 bits)