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= 024834
(262 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1DH3|A Chain A, Crystal Structure Of A Creb Bzip-Cre Complex Reveals The
Basis For Creb Faimly Selective Dimerization And Dna
Binding
pdb|1DH3|C Chain C, Crystal Structure Of A Creb Bzip-Cre Complex Reveals The
Basis For Creb Faimly Selective Dimerization And Dna
Binding
Length = 55
Score = 34.3 bits (77), Expect = 0.069, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 87 KTKKRPLGNREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQG 133
K + R + NREA R+ R KKK SLE+ V L N+ L++ L+
Sbjct: 1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKA 47
>pdb|1T2K|D Chain D, Structure Of The Dna Binding Domains Of Irf3, Atf-2 And
Jun Bound To Dna
Length = 61
Score = 32.0 bits (71), Expect = 0.32, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 95 NREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEVARLKCLLV 149
NR A + R+K+K SLE + L ++N QL + L EVA+LK LL+
Sbjct: 9 NRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEV---TLLRNEVAQLKQLLL 60
>pdb|2DGC|A Chain A, Gcn4 Basic Domain, Leucine Zipper Complexed With AtfCREB
Site Dna
Length = 63
Score = 31.2 bits (69), Expect = 0.53, Method: Composition-based stats.
Identities = 26/67 (38%), Positives = 33/67 (49%), Gaps = 11/67 (16%)
Query: 82 ESTEKKTKKRPLGNREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEV 141
ES++ KR N EA R+ R +K R LED+V L + N L E EV
Sbjct: 5 ESSDPAALKRAR-NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL----------ENEV 53
Query: 142 ARLKCLL 148
ARLK L+
Sbjct: 54 ARLKKLV 60
>pdb|1DGC|A Chain A, The X-Ray Structure Of The Gcn4-Bzip Bound To AtfCREB SITE
Dna Shows The Complex Depends On Dna Flexibility
Length = 62
Score = 31.2 bits (69), Expect = 0.62, Method: Composition-based stats.
Identities = 26/67 (38%), Positives = 33/67 (49%), Gaps = 11/67 (16%)
Query: 82 ESTEKKTKKRPLGNREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEV 141
ES++ KR N EA R+ R +K R LED+V L + N L E EV
Sbjct: 4 ESSDPAALKRAR-NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL----------ENEV 52
Query: 142 ARLKCLL 148
ARLK L+
Sbjct: 53 ARLKKLV 59
>pdb|1CI6|B Chain B, Transcription Factor Atf4-CEBP BETA BZIP HETERODIMER
Length = 63
Score = 30.4 bits (67), Expect = 1.0, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 89 KKRPLGNREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEVARLKCLL 148
K R N AVRK R+K K R + +V+ L A N++L K+++ L E++ L+ L
Sbjct: 4 KMRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVE---QLSRELSTLRNLF 60
>pdb|1YSA|C Chain C, The Gcn4 Basic Region Leucine Zipper Binds Dna As A Dimer
Of Uninterrupted Alpha Helices: Crystal Structure Of The
Protein-Dna Complex
pdb|1YSA|D Chain D, The Gcn4 Basic Region Leucine Zipper Binds Dna As A Dimer
Of Uninterrupted Alpha Helices: Crystal Structure Of The
Protein-Dna Complex
Length = 58
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 10/54 (18%)
Query: 95 NREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEVARLKCLL 148
N EA R+ R +K R LED+V L + N L E EVARLK L+
Sbjct: 12 NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL----------ENEVARLKKLV 55
>pdb|1LD4|E Chain E, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|F Chain F, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|G Chain G, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|H Chain H, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|I Chain I, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|J Chain J, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|K Chain K, Placement Of The Structural Proteins In Sindbis Virus
pdb|1LD4|L Chain L, Placement Of The Structural Proteins In Sindbis Virus
Length = 57
Score = 30.0 bits (66), Expect = 1.3, Method: Composition-based stats.
Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 10/54 (18%)
Query: 95 NREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEVARLKCLL 148
N EA R+ R +K R LED+V L + N L E EVARLK L+
Sbjct: 11 NTEAARRSRARKLQRMKQLEDKVEELLSKNYHL----------ENEVARLKKLV 54
>pdb|1H89|A Chain A, Crystal Structure Of Ternary Protein-Dna Complex2
pdb|1H89|B Chain B, Crystal Structure Of Ternary Protein-Dna Complex2
Length = 64
Score = 29.6 bits (65), Expect = 1.7, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 89 KKRPLGNREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEVARLKCLL 148
K R N AVRK R+K K R + +V+ L A N++L K+++ L E++ L+ L
Sbjct: 3 KIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVE---QLSRELSTLRNLF 59
>pdb|1CI6|A Chain A, Transcription Factor Atf4-CEBP BETA BZIP HETERODIMER
Length = 63
Score = 28.1 bits (61), Expect = 4.7, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 87 KTKKRPLGNREAVRKYREKKKARTASLEDEVVRLRAVNQQLLKRLQGQAALEAEVARLKC 146
K K+ N+ A +YR+KK+A +L E L N+ L +R +L E+ LK
Sbjct: 2 KKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERAD---SLAKEIQYLKD 58
Query: 147 LLVDI 151
L+ ++
Sbjct: 59 LIEEV 63
>pdb|4BAA|A Chain A, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
pdb|4BAA|B Chain B, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
pdb|4BAA|C Chain C, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
pdb|4BAA|D Chain D, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
Length = 705
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 46 CNPPGPDS-SHTHTCFHVHTKIVAPTSEDKVSTD---DTAESTEKKTKKRPLGNREAVRK 101
C+P P +CF I+A +D + TD D EK+ R AVR
Sbjct: 563 CDPTLPLLLGLKQSCFD---TILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRV 619
Query: 102 YREKKKARTASLEDEVVRLR 121
EKK +TA D +VR++
Sbjct: 620 LYEKKGHKTADNNDALVRIQ 639
>pdb|2YII|A Chain A, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|2YII|B Chain B, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|2YII|C Chain C, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|2YII|D Chain D, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|4BAB|A Chain A, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
pdb|4BAB|B Chain B, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
pdb|4BAB|C Chain C, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
pdb|4BAB|D Chain D, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
Length = 705
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 46 CNPPGPDS-SHTHTCFHVHTKIVAPTSEDKVSTD---DTAESTEKKTKKRPLGNREAVRK 101
C+P P +CF I+A +D + TD D EK+ R AVR
Sbjct: 563 CDPTLPLLLGLKQSCFD---TILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRV 619
Query: 102 YREKKKARTASLEDEVVRLR 121
EKK +TA D +VR++
Sbjct: 620 LYEKKGHKTADNNDALVRIQ 639
>pdb|3NZ4|A Chain A, Crystal Structure Of A Taxus Phenylalanine Aminomutase
pdb|3NZ4|B Chain B, Crystal Structure Of A Taxus Phenylalanine Aminomutase
Length = 696
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 46 CNPPGPDS-SHTHTCFHVHTKIVAPTSEDKVSTD---DTAESTEKKTKKRPLGNREAVRK 101
C+P P +CF I+A +D + TD D EK+ R AVR
Sbjct: 543 CDPTLPLLLGLKQSCFG---SILALHKKDGIETDTLVDRLAEFEKRLSDRLENEMTAVRV 599
Query: 102 YREKKKARTASLEDEVVRLR 121
EKK +TA D +VR++
Sbjct: 600 LYEKKGHKTADNNDALVRIQ 619
>pdb|3F0H|A Chain A, Crystal Structure Of Aminotransferase (Rer070207000802)
From Eubacterium Rectale At 1.70 A Resolution
Length = 376
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 120 LRAVNQQLLKRLQGQAALEAEVARLKCLLVDIRGRIEGEIGSFPYQKSVNNMNLPNPHSA 179
L +N++L K ++ +AEVAR+ D R +I+ + N + +P +A
Sbjct: 260 LLQINERL-KEIKKHGGADAEVARIASQAADFRAKIKDLPFELVSESPANGVTSVHPTTA 318
Query: 180 GAY 182
AY
Sbjct: 319 NAY 321
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 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,298,345
Number of Sequences: 62578
Number of extensions: 340662
Number of successful extensions: 629
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 620
Number of HSP's gapped (non-prelim): 23
length of query: 262
length of database: 14,973,337
effective HSP length: 97
effective length of query: 165
effective length of database: 8,903,271
effective search space: 1469039715
effective search space used: 1469039715
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)