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= 037798
(687 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 = 0.002, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 46/82 (56%), Gaps = 8/82 (9%)
Query: 484 ANHVLAERRRREKLNERFIILRSLVPFV--TKMDKASILGDTIEYVKQLRKKI----QDL 537
A+H ER+RR+ + + F LR VP + K +A IL EY++ +R+K+ QD+
Sbjct: 6 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDI 65
Query: 538 ESRNINNQILEGDQRSRSADGS 559
+ N +LE Q+ R+ +GS
Sbjct: 66 DDLKRQNALLE--QQVRALEGS 85
>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 = 39.7 bits (91), Expect = 0.006, Method: Composition-based stats.
Identities = 24/63 (38%), Positives = 39/63 (61%), Gaps = 7/63 (11%)
Query: 485 NHVLAERRRREKLNERFIILRSLVPFVTKMD----KASILGDTIEYVKQLRKKIQ---DL 537
NH L ERRRR +N+R L +L+P D K +IL +++Y+++L+++ Q DL
Sbjct: 30 NHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDL 89
Query: 538 ESR 540
E+R
Sbjct: 90 ENR 92
>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 = 0.034, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 484 ANHVLAERRRREKLNERFIILRSLVPFV--TKMDKASILGDTIEYVKQLRKK----IQDL 537
A+H ER+RR+ + + F LR VP + K +A IL EY++ +R+K QD+
Sbjct: 4 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 63
Query: 538 ESRNINNQILE 548
+ N +LE
Sbjct: 64 DDLKRQNALLE 74
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 484 ANHVLAERRRREKLNERFIILRSLVPFV--TKMDKASILGDTIEYVKQLRKK----IQDL 537
A+H ER+RR+ + + F LR VP + K +A IL EY++ +R+K QD+
Sbjct: 5 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 64
Query: 538 ESRNINNQILE 548
+ N +LE
Sbjct: 65 DDLKRQNALLE 75
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 36.6 bits (83), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 486 HVLAERRRREKLNERFIILRSLVPFVT----KMDKASILGDTIEYVKQLRKKIQDLESRN 541
H E+RRR+K+N L SLVP K+DK ++L ++++K LR N
Sbjct: 17 HSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGATNPYTEAN 76
Query: 542 INNQILEGDQRS----RSADG 558
L D+ R+ADG
Sbjct: 77 YKPTFLSDDELKHLILRAADG 97
>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 = 0.052, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 484 ANHVLAERRRREKLNERFIILRSLVPFV--TKMDKASILGDTIEYVKQLRKK----IQDL 537
A+H ER+RR+ + + F LR VP + K +A IL EY++ +R+K QD+
Sbjct: 3 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 62
Query: 538 ESRNINNQILE 548
+ N +LE
Sbjct: 63 DDLKRQNALLE 73
>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 = 36.2 bits (82), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 9/67 (13%)
Query: 484 ANHVLAERRRREKLNERFIILRSLVPFV--TKMDKASILGDTIEYVKQLRKK-------I 534
A+H ER+RR+ + + F LR VP + K +A IL EY++ +R+K I
Sbjct: 14 AHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDI 73
Query: 535 QDLESRN 541
DL+ +N
Sbjct: 74 DDLKRQN 80
>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 = 33.5 bits (75), Expect = 0.45, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 486 HVLAERRRREKLNERFIILRSLVP----FVTKMDKASILGDTIEYVKQLR 531
H E+RRR+K+N L SLVP K+DK ++L ++++K LR
Sbjct: 13 HSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>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 = 2.7, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 484 ANHVLAERRRREKLNERFIILRSLVP------FVTKMDKASILGDTIEYVKQLRK 532
A H ERRRR+K+N + L ++P + K IL +Y+++LR+
Sbjct: 7 AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61
>pdb|2P4F|A Chain A, Crystal Structure Of Atp11 Functional Domain From Candida
Glabrata
Length = 299
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 5/37 (13%)
Query: 414 AKWTDRSDHLLAVPVPVEGTSQWVLKYV----LFTVP 446
AKW++R D L+AV VP T Q + KY LF +P
Sbjct: 125 AKWSNRDDSLVAV-VPYVKTFQGMYKYAVKNPLFVLP 160
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
0.314 0.130 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,741,998
Number of Sequences: 62578
Number of extensions: 738964
Number of successful extensions: 1140
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1133
Number of HSP's gapped (non-prelim): 13
length of query: 687
length of database: 14,973,337
effective HSP length: 105
effective length of query: 582
effective length of database: 8,402,647
effective search space: 4890340554
effective search space used: 4890340554
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: 55 (25.8 bits)