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= 047004
(497 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 = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 315 ERRRRKKLNDRLYMLRSVVPKIS--KMDRASILGDAIEYLKELLQRINDLHNELESTPPG 372
ER+RR + D + LR VP + K RA IL A EY++ + ++++ L +++
Sbjct: 12 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDIDDLKRQ 71
Query: 373 SAL 375
+AL
Sbjct: 72 NAL 74
>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 = 37.0 bits (84), Expect = 0.022, Method: Composition-based stats.
Identities = 21/59 (35%), Positives = 36/59 (61%), Gaps = 7/59 (11%)
Query: 313 MAERRRRKKLNDRLYMLRSVVPKISKMD----RASILGDAIEYLKEL---LQRINDLHN 364
+ ERRRR +NDR+ L +++PK + D + +IL +++Y+++L QR DL N
Sbjct: 33 LIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQREQQRAKDLEN 91
>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 = 36.2 bits (82), Expect = 0.045, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 315 ERRRRKKLNDRLYMLRSVVPKIS--KMDRASILGDAIEYLKELLQRINDLHNE 365
ER+RR + D + LR VP + K RA IL A EY+ + ++R N H +
Sbjct: 10 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI-QYMRRKNHTHQQ 61
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 315 ERRRRKKLNDRLYMLRSVVPKIS--KMDRASILGDAIEYLKELLQRINDLHNE 365
ER+RR + D + LR VP + K RA IL A EY+ + ++R N H +
Sbjct: 11 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI-QYMRRKNHTHQQ 62
>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 = 36.2 bits (82), Expect = 0.049, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 315 ERRRRKKLNDRLYMLRSVVPKIS--KMDRASILGDAIEYLKELLQRINDLHNE 365
ER+RR + D + LR VP + K RA IL A EY+ + ++R N H +
Sbjct: 9 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI-QYMRRKNHTHQQ 60
>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 = 35.0 bits (79), Expect = 0.097, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 315 ERRRRKKLNDRLYMLRSVVPKIS--KMDRASILGDAIEYLKELLQRINDLHNE 365
ER+RR + D + LR VP + K RA IL A EY+ + ++R N H +
Sbjct: 20 ERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI-QYMRRKNHTHQQ 71
>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 = 32.7 bits (73), Expect = 0.43, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 4/60 (6%)
Query: 300 QKGKKKGLPAKNLMAERRRRKKLNDRLYMLRSVVPKIS----KMDRASILGDAIEYLKEL 355
+G+ K + E+RRR K+N + L S+VP + K+D+ ++L A++++K L
Sbjct: 2 HQGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTL 61
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 298 GDQKGKKKGLPAKNLMAERRRRKKLNDRLYMLRSVVPKIS----KMDRASILGDAIEYLK 353
+ +G+ K + E+RRR K+N + L S+VP + K+D+ ++L A++++K
Sbjct: 4 AEHQGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMK 63
Query: 354 EL 355
L
Sbjct: 64 TL 65
>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 = 1.7, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 309 AKNLMAERRRRKKLNDRLYMLRSVVPKISK------MDRASILGDAIEYLKELLQ 357
A++ ERRRR K+N+ + L ++P S + IL A +Y++EL Q
Sbjct: 7 AQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQ 61
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 0.134 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,602,459
Number of Sequences: 62578
Number of extensions: 603169
Number of successful extensions: 954
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 954
Number of HSP's gapped (non-prelim): 14
length of query: 497
length of database: 14,973,337
effective HSP length: 103
effective length of query: 394
effective length of database: 8,527,803
effective search space: 3359954382
effective search space used: 3359954382
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)