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= 011621
(481 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 = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 275 PPKDYIHVRARRGQATDSHSLAERVRREKISERMKFLQDLVPGCNKVT---GKAVMLDEI 331
P + A+ Q D+H+L ER RR I++R+K L L+P N K +L
Sbjct: 13 PTESEARALAKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKAS 72
Query: 332 INYVQSLQRQ 341
++Y++ LQR+
Sbjct: 73 VDYIRKLQRE 82
>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 = 33.5 bits (75), Expect = 0.24, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 32/54 (59%)
Query: 286 RGQATDSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQSLQ 339
RG+ +H+ E+ R I++++ L+DLV G K+ +L + I+Y++ LQ
Sbjct: 3 RGEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQ 56
>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 = 32.7 bits (73), Expect = 0.43, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 293 HSLAERVRREKISERMKFLQDLVPGCN-KVTGKAVMLDEIINYVQSLQRQVEFLSMKL 349
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+V L +
Sbjct: 8 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDI 65
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 32.3 bits (72), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 278 DYIHVRARRGQATDSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQS 337
+Y + R A ++HS E+ RR+K++ + L LVP CN ++ K LD++
Sbjct: 2 EYAEHQGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRK---LDKL----TV 54
Query: 338 LQRQVEFLSMKLATVNPRMDLNME-ALLSKD 367
L+ V+ + NP + N + LS D
Sbjct: 55 LRMAVQHMKTLRGATNPYTEANYKPTFLSDD 85
>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 = 31.6 bits (70), Expect = 1.0, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 31/57 (54%)
Query: 283 RARRGQATDSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQSLQ 339
+ R A ++HS E+ RR+K++ + L LVP CN ++ K L + VQ ++
Sbjct: 3 QGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMK 59
>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 = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 293 HSLAERVRREKISERMKFLQDLVPGCN-KVTGKAVMLDEIINYVQSLQRQ 341
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 6 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 55
>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 = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 293 HSLAERVRREKISERMKFLQDLVPGCN-KVTGKAVMLDEIINYVQSLQRQ 341
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 5 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 54
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 29.6 bits (65), Expect = 3.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 293 HSLAERVRREKISERMKFLQDLVPGCN-KVTGKAVMLDEIINYVQSLQRQ 341
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 7 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 56
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 29.3 bits (64), Expect = 4.5, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 14/79 (17%)
Query: 306 ERMKFLQDLVPGCNKVTGKAVMLDEIINYVQSLQRQVEFLS-----MKLATVNPRMD--- 357
E + FL+D + G V G+ + L+E I S+Q Q E+L+ +KL+ D
Sbjct: 426 ESIIFLEDFITGVRSVEGEVLNLNEKIELKDSIQAQ-EWLNILDTEIKLSVFTQFRDCLG 484
Query: 358 -----LNMEALLSKDLFQS 371
++E ++SK +FQ+
Sbjct: 485 QIKDGTDIEVVVSKYIFQA 503
>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 = 29.3 bits (64), Expect = 4.5, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 293 HSLAERVRREKISERMKFLQDLVPGCN-KVTGKAVMLDEIINYVQSLQRQ 341
H+ ER RR+ I + L+D VP + +A +LD+ Y+Q ++R+
Sbjct: 16 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 65
>pdb|2GIM|A Chain A, 1.6 Angstrom Structure Of Plastocyanin From Anabaena
Variabilis
pdb|2GIM|C Chain C, 1.6 Angstrom Structure Of Plastocyanin From Anabaena
Variabilis
Length = 106
Score = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 25/50 (50%)
Query: 342 VEFLSMKLATVNPRMDLNMEALLSKDLFQSCGYVQHSLYPGDCSVQTFPS 391
VEFL+ K+ N D + S DL +S + Q + PG + TFP+
Sbjct: 30 VEFLNNKVPPHNVVFDAALNPAKSADLAKSLSHKQLLMSPGQSTSTTFPA 79
>pdb|1FA4|A Chain A, Elucidation Of The Paramagnetic Relaxation Of Heteronuclei
And Protons In Cu(Ii) Plastocyanin From Anabaena
Variabilis
pdb|1NIN|A Chain A, Plastocyanin From Anabaena Variabilis, Nmr, 20 Structures
pdb|1TU2|A Chain A, The Complex Of Nostoc Cytochrome F And Plastocyanin
Determin With Paramagnetic Nmr. Based On The Structures
Of Cytochrome F And Plastocyanin, 10 Structures
pdb|2CJ3|A Chain A, Crystal Structure Of Plastocyanin From A Cyanobacterium,
Anabaena Variabilis
pdb|2CJ3|B Chain B, Crystal Structure Of Plastocyanin From A Cyanobacterium,
Anabaena Variabilis
Length = 105
Score = 28.9 bits (63), Expect = 6.3, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 25/50 (50%)
Query: 342 VEFLSMKLATVNPRMDLNMEALLSKDLFQSCGYVQHSLYPGDCSVQTFPS 391
VEFL+ K+ N D + S DL +S + Q + PG + TFP+
Sbjct: 29 VEFLNNKVPPHNVVFDAALNPAKSADLAKSLSHKQLLMSPGQSTSTTFPA 78
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
0.311 0.126 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,738,668
Number of Sequences: 62578
Number of extensions: 466041
Number of successful extensions: 813
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 806
Number of HSP's gapped (non-prelim): 13
length of query: 481
length of database: 14,973,337
effective HSP length: 103
effective length of query: 378
effective length of database: 8,527,803
effective search space: 3223509534
effective search space used: 3223509534
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)