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= 022116
(302 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 43/89 (48%), Gaps = 9/89 (10%)
Query: 106 ARRGQATDSHSLAERVRREKISERMKYLQDLVPGCNK---ITGKAGMLDEIINYVQSLQR 162
A+ Q D+H+L ER RR I++R+K L L+P N K +L ++Y++ LQR
Sbjct: 22 AKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQR 81
Query: 163 Q------VEFLSMKLAAVNPRLDFNVDNL 185
+ +E KL N L V L
Sbjct: 82 EQQRAKDLENRQKKLEHANRHLLLRVQEL 110
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 34.7 bits (78), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 7/87 (8%)
Query: 100 DYIHVRARRGQATDSHSLAERVRREKISERMKYLQDLVPGCNKITGKAGMLDEIINYVQS 159
+Y + R A ++HS E+ RR+K++ + L LVP CN ++ K ++ +
Sbjct: 2 EYAEHQGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRK-------LDKLTV 54
Query: 160 LQRQVEFLSMKLAAVNPRLDFNVDNLF 186
L+ V+ + A NP + N F
Sbjct: 55 LRMAVQHMKTLRGATNPYTEANYKPTF 81
>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 = 34.3 bits (77), Expect = 0.089, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 32/54 (59%)
Query: 108 RGQATDSHSLAERVRREKISERMKYLQDLVPGCNKITGKAGMLDEIINYVQSLQ 161
RG+ +H+ E+ R I++++ L+DLV G K+ +L + I+Y++ LQ
Sbjct: 3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQ 56
>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 = 33.1 bits (74), Expect = 0.19, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 31/57 (54%)
Query: 105 RARRGQATDSHSLAERVRREKISERMKYLQDLVPGCNKITGKAGMLDEIINYVQSLQ 161
+ R A ++HS E+ RR+K++ + L LVP CN ++ K L + VQ ++
Sbjct: 3 QGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMK 59
>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 = 33.1 bits (74), Expect = 0.19, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 115 HSLAERVRREKISERMKYLQDLVPGCN-KITGKAGMLDEIINYVQSLQRQVEFLSMKL 171
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+V L +
Sbjct: 8 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDI 65
>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 = 31.2 bits (69), Expect = 0.80, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 115 HSLAERVRREKISERMKYLQDLVPGCN-KITGKAGMLDEIINYVQSLQRQ 163
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 6 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 55
>pdb|1UKL|C Chain C, Crystal Structure Of Importin-Beta And Srebp-2 Complex
pdb|1UKL|D Chain D, Crystal Structure Of Importin-Beta And Srebp-2 Complex
pdb|1UKL|E Chain E, Crystal Structure Of Importin-Beta And Srebp-2 Complex
pdb|1UKL|F Chain F, Crystal Structure Of Importin-Beta And Srebp-2 Complex
Length = 61
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 27/40 (67%)
Query: 123 REKISERMKYLQDLVPGCNKITGKAGMLDEIINYVQSLQR 162
R I++++ L+DLV G + K+G+L + I+Y++ LQ+
Sbjct: 1 RSSINDKIIELKDLVXGTDAKXHKSGVLRKAIDYIKYLQQ 40
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 115 HSLAERVRREKISERMKYLQDLVPGCN-KITGKAGMLDEIINYVQSLQRQ 163
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 7 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 56
>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 = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 115 HSLAERVRREKISERMKYLQDLVPGCN-KITGKAGMLDEIINYVQSLQRQ 163
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 5 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 54
>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 = 30.4 bits (67), Expect = 1.3, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 115 HSLAERVRREKISERMKYLQDLVPGCN-KITGKAGMLDEIINYVQSLQRQ 163
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 16 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 65
>pdb|3M1R|A Chain A, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|B Chain B, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|C Chain C, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|D Chain D, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|E Chain E, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|F Chain F, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
Length = 322
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 134 QDLVPGCNKITGKAGML-DEIINYVQSLQRQVEFLSMKLAAVNPRLDF 180
Q PGC I G G+ DE++ V+ + +Q +++ V+P LDF
Sbjct: 251 QSHAPGCPAI-GPGGLYTDELLEAVKYIAQQPNVAGIEIVEVDPTLDF 297
>pdb|1MU2|B Chain B, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 426
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 188 KEAFPVCPSNFPTIGMSSEMTHPAAYLHQFNSLQQQAVSCSGLDLGIINPSEMGLRRTIS 247
+EA P P N PT + + + L F L + + + LGI +P+ + +R I+
Sbjct: 43 EEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKRRIT 102
Query: 248 A 248
Sbjct: 103 V 103
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 188 KEAFPVCPSNFPTIGMSSEMTHPAAYLHQFNSLQQQAVSCSGLDLGIINPSEMGLRRTIS 247
+EA P P N PT + + + L F L + + + LGI +P+ + +R I+
Sbjct: 48 EEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKRRIT 107
Query: 248 A 248
Sbjct: 108 V 108
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 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,981,231
Number of Sequences: 62578
Number of extensions: 288098
Number of successful extensions: 623
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 614
Number of HSP's gapped (non-prelim): 14
length of query: 302
length of database: 14,973,337
effective HSP length: 98
effective length of query: 204
effective length of database: 8,840,693
effective search space: 1803501372
effective search space used: 1803501372
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: 51 (24.3 bits)